fix: keep cleared modified files hidden across new diff updates

fix: let users clear sidebar modified files without mutating diff state
2026-02-18 14:54:17 +00:00 · 2026-02-14 17:03:23 -05:00 · 2026-02-14 15:59:53 -05:00
51 changed files with 222 additions and 649 deletions
--- a/.opencode/opencode.jsonc
+++ b/.opencode/opencode.jsonc
@@ -3,7 +3,6 @@
  // "enterprise": {
  //   "url": "https://enterprise.dev.opencode.ai",
  // },
-  "references": ["git@github.com:Effect-TS/effect.git"],
  "provider": {
    "opencode": {
      "options": {},
--- a/bun.lock
+++ b/bun.lock
@@ -23,7 +23,7 @@
    },
    "packages/app": {
      "name": "@opencode-ai/app",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@kobalte/core": "catalog:",
        "@opencode-ai/sdk": "workspace:*",
@@ -73,7 +73,7 @@
    },
    "packages/console/app": {
      "name": "@opencode-ai/console-app",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@cloudflare/vite-plugin": "1.15.2",
        "@ibm/plex": "6.4.1",
@@ -107,7 +107,7 @@
    },
    "packages/console/core": {
      "name": "@opencode-ai/console-core",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@aws-sdk/client-sts": "3.782.0",
        "@jsx-email/render": "1.1.1",
@@ -134,7 +134,7 @@
    },
    "packages/console/function": {
      "name": "@opencode-ai/console-function",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@ai-sdk/anthropic": "2.0.0",
        "@ai-sdk/openai": "2.0.2",
@@ -158,7 +158,7 @@
    },
    "packages/console/mail": {
      "name": "@opencode-ai/console-mail",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@jsx-email/all": "2.2.3",
        "@jsx-email/cli": "1.4.3",
@@ -182,7 +182,7 @@
    },
    "packages/desktop": {
      "name": "@opencode-ai/desktop",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@opencode-ai/app": "workspace:*",
        "@opencode-ai/ui": "workspace:*",
@@ -215,7 +215,7 @@
    },
    "packages/enterprise": {
      "name": "@opencode-ai/enterprise",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@opencode-ai/ui": "workspace:*",
        "@opencode-ai/util": "workspace:*",
@@ -244,7 +244,7 @@
    },
    "packages/function": {
      "name": "@opencode-ai/function",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@octokit/auth-app": "8.0.1",
        "@octokit/rest": "catalog:",
@@ -260,7 +260,7 @@
    },
    "packages/opencode": {
      "name": "opencode",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "bin": {
        "opencode": "./bin/opencode",
      },
@@ -369,7 +369,7 @@
    },
    "packages/plugin": {
      "name": "@opencode-ai/plugin",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@opencode-ai/sdk": "workspace:*",
        "zod": "catalog:",
@@ -389,7 +389,7 @@
    },
    "packages/sdk/js": {
      "name": "@opencode-ai/sdk",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "devDependencies": {
        "@hey-api/openapi-ts": "0.90.10",
        "@tsconfig/node22": "catalog:",
@@ -400,7 +400,7 @@
    },
    "packages/slack": {
      "name": "@opencode-ai/slack",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@opencode-ai/sdk": "workspace:*",
        "@slack/bolt": "^3.17.1",
@@ -413,7 +413,7 @@
    },
    "packages/ui": {
      "name": "@opencode-ai/ui",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@kobalte/core": "catalog:",
        "@opencode-ai/sdk": "workspace:*",
@@ -455,7 +455,7 @@
    },
    "packages/util": {
      "name": "@opencode-ai/util",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "zod": "catalog:",
      },
@@ -466,7 +466,7 @@
    },
    "packages/web": {
      "name": "@opencode-ai/web",
-      "version": "1.2.4",
+      "version": "1.2.2",
      "dependencies": {
        "@astrojs/cloudflare": "12.6.3",
        "@astrojs/markdown-remark": "6.3.1",
--- a/packages/app/e2e/selectors.ts
+++ b/packages/app/e2e/selectors.ts
@@ -30,9 +30,6 @@ export const projectMenuTriggerSelector = (slug: string) =>

 export const projectCloseMenuSelector = (slug: string) => `[data-action="project-close-menu"][data-project="${slug}"]`

-export const projectClearNotificationsSelector = (slug: string) =>
-  `[data-action="project-clear-notifications"][data-project="${slug}"]`
-
 export const projectWorkspacesToggleSelector = (slug: string) =>
  `[data-action="project-workspaces-toggle"][data-project="${slug}"]`

--- a/packages/app/package.json
+++ b/packages/app/package.json
@@ -1,6 +1,6 @@
 {
  "name": "@opencode-ai/app",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "description": "",
  "type": "module",
  "exports": {
--- a/packages/app/src/components/file-tree.tsx
+++ b/packages/app/src/components/file-tree.tsx
@@ -21,8 +21,6 @@ import {
 import { Dynamic } from "solid-js/web"
 import type { FileNode } from "@opencode-ai/sdk/v2"

-const MAX_DEPTH = 128
-
 function pathToFileUrl(filepath: string): string {
  return `file://${encodeFilePath(filepath)}`
 }
@@ -262,20 +260,12 @@ export default function FileTree(props: {
  _marks?: Set<string>
  _deeps?: Map<string, number>
  _kinds?: ReadonlyMap<string, Kind>
-  _chain?: readonly string[]
 }) {
  const file = useFile()
  const level = props.level ?? 0
  const draggable = () => props.draggable ?? true
  const tooltip = () => props.tooltip ?? true

-  const key = (p: string) =>
-    file
-      .normalize(p)
-      .replace(/[\\/]+$/, "")
-      .replaceAll("\\", "/")
-  const chain = props._chain ? [...props._chain, key(props.path)] : [key(props.path)]
-
  const filter = createMemo(() => {
    if (props._filter) return props._filter

@@ -317,45 +307,23 @@ export default function FileTree(props: {

    const out = new Map<string, number>()

-    const root = props.path
-    if (!(file.tree.state(root)?.expanded ?? false)) return out
+    const visit = (dir: string, lvl: number): number => {
+      const expanded = file.tree.state(dir)?.expanded ?? false
+      if (!expanded) return -1

-    const seen = new Set<string>()
-    const stack: { dir: string; lvl: number; i: number; kids: string[]; max: number }[] = []
+      const nodes = file.tree.children(dir)
+      const max = nodes.reduce((max, node) => {
+        if (node.type !== "directory") return max
+        const open = file.tree.state(node.path)?.expanded ?? false
+        if (!open) return max
+        return Math.max(max, visit(node.path, lvl + 1))
+      }, lvl)

-    const push = (dir: string, lvl: number) => {
-      const id = key(dir)
-      if (seen.has(id)) return
-      seen.add(id)
-
-      const kids = file.tree
-        .children(dir)
-        .filter((node) => node.type === "directory" && (file.tree.state(node.path)?.expanded ?? false))
-        .map((node) => node.path)
-
-      stack.push({ dir, lvl, i: 0, kids, max: lvl })
-    }
-
-    push(root, level - 1)
-
-    while (stack.length > 0) {
-      const top = stack[stack.length - 1]!
-
-      if (top.i < top.kids.length) {
-        const next = top.kids[top.i]!
-        top.i++
-        push(next, top.lvl + 1)
-        continue
-      }
-
-      out.set(top.dir, top.max)
-      stack.pop()
-
-      const parent = stack[stack.length - 1]
-      if (!parent) continue
-      parent.max = Math.max(parent.max, top.max)
+      out.set(dir, max)
+      return max
    }

+    visit(props.path, level - 1)
    return out
  })

@@ -491,27 +459,21 @@ export default function FileTree(props: {
                      }}
                      style={`left: ${Math.max(0, 8 + level * 12 - 4) + 8}px`}
                    />
-                    <Show
-                      when={level < MAX_DEPTH && !chain.includes(key(node.path))}
-                      fallback={<div class="px-2 py-1 text-12-regular text-text-weak">...</div>}
-                    >
-                      <FileTree
-                        path={node.path}
-                        level={level + 1}
-                        allowed={props.allowed}
-                        modified={props.modified}
-                        kinds={props.kinds}
-                        active={props.active}
-                        draggable={props.draggable}
-                        tooltip={props.tooltip}
-                        onFileClick={props.onFileClick}
-                        _filter={filter()}
-                        _marks={marks()}
-                        _deeps={deeps()}
-                        _kinds={kinds()}
-                        _chain={chain}
-                      />
-                    </Show>
+                    <FileTree
+                      path={node.path}
+                      level={level + 1}
+                      allowed={props.allowed}
+                      modified={props.modified}
+                      kinds={props.kinds}
+                      active={props.active}
+                      draggable={props.draggable}
+                      tooltip={props.tooltip}
+                      onFileClick={props.onFileClick}
+                      _filter={filter()}
+                      _marks={marks()}
+                      _deeps={deeps()}
+                      _kinds={kinds()}
+                    />
                  </Collapsible.Content>
                </Collapsible>
              </Match>
--- a/packages/app/src/i18n/ar.ts
+++ b/packages/app/src/i18n/ar.ts
@@ -509,7 +509,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "قم بتوصيل أي موفر لاستخدام النماذج، بما في ذلك Claude و GPT و Gemini وما إلى ذلك.",
  "sidebar.project.recentSessions": "الجلسات الحديثة",
  "sidebar.project.viewAllSessions": "عرض جميع الجلسات",
-  "sidebar.project.clearNotifications": "مسح الإشعارات",
  "app.name.desktop": "OpenCode Desktop",
  "settings.section.desktop": "سطح المكتب",
  "settings.section.server": "الخادم",
--- a/packages/app/src/i18n/br.ts
+++ b/packages/app/src/i18n/br.ts
@@ -515,7 +515,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "Conecte qualquer provedor para usar modelos, incluindo Claude, GPT, Gemini etc.",
  "sidebar.project.recentSessions": "Sessões recentes",
  "sidebar.project.viewAllSessions": "Ver todas as sessões",
-  "sidebar.project.clearNotifications": "Limpar notificações",
  "app.name.desktop": "OpenCode Desktop",
  "settings.section.desktop": "Desktop",
  "settings.section.server": "Servidor",
--- a/packages/app/src/i18n/bs.ts
+++ b/packages/app/src/i18n/bs.ts
@@ -576,7 +576,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "Poveži bilo kojeg provajdera da koristiš modele, npr. Claude, GPT, Gemini itd.",
  "sidebar.project.recentSessions": "Nedavne sesije",
  "sidebar.project.viewAllSessions": "Prikaži sve sesije",
-  "sidebar.project.clearNotifications": "Očisti obavijesti",

  "app.name.desktop": "OpenCode Desktop",

--- a/packages/app/src/i18n/da.ts
+++ b/packages/app/src/i18n/da.ts
@@ -572,7 +572,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "Forbind enhver udbyder for at bruge modeller, inkl. Claude, GPT, Gemini osv.",
  "sidebar.project.recentSessions": "Seneste sessioner",
  "sidebar.project.viewAllSessions": "Vis alle sessioner",
-  "sidebar.project.clearNotifications": "Ryd notifikationer",

  "app.name.desktop": "OpenCode Desktop",
  "settings.section.desktop": "Desktop",
--- a/packages/app/src/i18n/de.ts
+++ b/packages/app/src/i18n/de.ts
@@ -524,7 +524,6 @@ export const dict = {
    "Verbinden Sie einen beliebigen Anbieter, um Modelle wie Claude, GPT, Gemini usw. zu nutzen.",
  "sidebar.project.recentSessions": "Letzte Sitzungen",
  "sidebar.project.viewAllSessions": "Alle Sitzungen anzeigen",
-  "sidebar.project.clearNotifications": "Benachrichtigungen löschen",
  "app.name.desktop": "OpenCode Desktop",
  "settings.section.desktop": "Desktop",
  "settings.section.server": "Server",
--- a/packages/app/src/i18n/en.ts
+++ b/packages/app/src/i18n/en.ts
@@ -577,7 +577,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "Connect any provider to use models, inc. Claude, GPT, Gemini etc.",
  "sidebar.project.recentSessions": "Recent sessions",
  "sidebar.project.viewAllSessions": "View all sessions",
-  "sidebar.project.clearNotifications": "Clear notifications",

  "app.name.desktop": "OpenCode Desktop",

--- a/packages/app/src/i18n/es.ts
+++ b/packages/app/src/i18n/es.ts
@@ -579,7 +579,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "Conecta cualquier proveedor para usar modelos, inc. Claude, GPT, Gemini etc.",
  "sidebar.project.recentSessions": "Sesiones recientes",
  "sidebar.project.viewAllSessions": "Ver todas las sesiones",
-  "sidebar.project.clearNotifications": "Borrar notificaciones",

  "app.name.desktop": "OpenCode Desktop",

--- a/packages/app/src/i18n/fr.ts
+++ b/packages/app/src/i18n/fr.ts
@@ -523,7 +523,6 @@ export const dict = {
    "Connectez n'importe quel fournisseur pour utiliser des modèles, y compris Claude, GPT, Gemini etc.",
  "sidebar.project.recentSessions": "Sessions récentes",
  "sidebar.project.viewAllSessions": "Voir toutes les sessions",
-  "sidebar.project.clearNotifications": "Effacer les notifications",
  "app.name.desktop": "OpenCode Desktop",
  "settings.section.desktop": "Bureau",
  "settings.section.server": "Serveur",
--- a/packages/app/src/i18n/ja.ts
+++ b/packages/app/src/i18n/ja.ts
@@ -513,7 +513,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "プロバイダーを接続して、Claude、GPT、Geminiなどのモデルを使用できます。",
  "sidebar.project.recentSessions": "最近のセッション",
  "sidebar.project.viewAllSessions": "すべてのセッションを表示",
-  "sidebar.project.clearNotifications": "通知をクリア",
  "app.name.desktop": "OpenCode Desktop",
  "settings.section.desktop": "デスクトップ",
  "settings.section.server": "サーバー",
--- a/packages/app/src/i18n/ko.ts
+++ b/packages/app/src/i18n/ko.ts
@@ -514,7 +514,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "Claude, GPT, Gemini 등을 포함한 모델을 사용하려면 공급자를 연결하세요.",
  "sidebar.project.recentSessions": "최근 세션",
  "sidebar.project.viewAllSessions": "모든 세션 보기",
-  "sidebar.project.clearNotifications": "알림 지우기",
  "app.name.desktop": "OpenCode Desktop",
  "settings.section.desktop": "데스크톱",
  "settings.section.server": "서버",
--- a/packages/app/src/i18n/no.ts
+++ b/packages/app/src/i18n/no.ts
@@ -579,7 +579,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "Koble til en leverandør for å bruke modeller, inkl. Claude, GPT, Gemini osv.",
  "sidebar.project.recentSessions": "Nylige sesjoner",
  "sidebar.project.viewAllSessions": "Vis alle sesjoner",
-  "sidebar.project.clearNotifications": "Fjern varsler",

  "app.name.desktop": "OpenCode Desktop",

--- a/packages/app/src/i18n/pl.ts
+++ b/packages/app/src/i18n/pl.ts
@@ -514,7 +514,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "Połącz dowolnego dostawcę, aby używać modeli, w tym Claude, GPT, Gemini itp.",
  "sidebar.project.recentSessions": "Ostatnie sesje",
  "sidebar.project.viewAllSessions": "Zobacz wszystkie sesje",
-  "sidebar.project.clearNotifications": "Wyczyść powiadomienia",
  "app.name.desktop": "OpenCode Desktop",
  "settings.section.desktop": "Pulpit",
  "settings.section.server": "Serwer",
--- a/packages/app/src/i18n/ru.ts
+++ b/packages/app/src/i18n/ru.ts
@@ -578,7 +578,6 @@ export const dict = {
    "Подключите любого провайдера для использования моделей, включая Claude, GPT, Gemini и др.",
  "sidebar.project.recentSessions": "Недавние сессии",
  "sidebar.project.viewAllSessions": "Посмотреть все сессии",
-  "sidebar.project.clearNotifications": "Очистить уведомления",

  "app.name.desktop": "OpenCode Desktop",
  "settings.section.desktop": "Приложение",
--- a/packages/app/src/i18n/th.ts
+++ b/packages/app/src/i18n/th.ts
@@ -571,7 +571,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "เชื่อมต่อผู้ให้บริการใด ๆ เพื่อใช้โมเดล รวมถึง Claude, GPT, Gemini ฯลฯ",
  "sidebar.project.recentSessions": "เซสชันล่าสุด",
  "sidebar.project.viewAllSessions": "ดูเซสชันทั้งหมด",
-  "sidebar.project.clearNotifications": "ล้างการแจ้งเตือน",

  "app.name.desktop": "OpenCode Desktop",

--- a/packages/app/src/i18n/zh.ts
+++ b/packages/app/src/i18n/zh.ts
@@ -569,7 +569,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "连接任意提供商即可使用更多模型，如 Claude、GPT、Gemini 等。",
  "sidebar.project.recentSessions": "最近会话",
  "sidebar.project.viewAllSessions": "查看全部会话",
-  "sidebar.project.clearNotifications": "清除通知",

  "app.name.desktop": "OpenCode Desktop",

--- a/packages/app/src/i18n/zht.ts
+++ b/packages/app/src/i18n/zht.ts
@@ -567,7 +567,6 @@ export const dict = {
  "sidebar.gettingStarted.line2": "連線任意提供者即可使用更多模型，如 Claude、GPT、Gemini 等。",
  "sidebar.project.recentSessions": "最近工作階段",
  "sidebar.project.viewAllSessions": "查看全部工作階段",
-  "sidebar.project.clearNotifications": "清除通知",

  "app.name.desktop": "OpenCode Desktop",
  "settings.section.desktop": "桌面",
--- a/packages/app/src/pages/layout.tsx
+++ b/packages/app/src/pages/layout.tsx
@@ -1692,13 +1692,6 @@ export default function Layout(props: ParentProps) {
    })
    const projectId = createMemo(() => panelProps.project?.id ?? "")
    const workspaces = createMemo(() => workspaceIds(panelProps.project))
-    const unseenCount = createMemo(() =>
-      workspaces().reduce((total, directory) => total + notification.project.unseenCount(directory), 0),
-    )
-    const clearNotifications = () =>
-      workspaces()
-        .filter((directory) => notification.project.unseenCount(directory) > 0)
-        .forEach((directory) => notification.project.markViewed(directory))
    const workspacesEnabled = createMemo(() => {
      const project = panelProps.project
      if (!project) return false
@@ -1776,16 +1769,6 @@ export default function Layout(props: ParentProps) {
                              : language.t("sidebar.workspaces.enable")}
                          </DropdownMenu.ItemLabel>
                        </DropdownMenu.Item>
-                        <DropdownMenu.Item
-                          data-action="project-clear-notifications"
-                          data-project={base64Encode(p().worktree)}
-                          disabled={unseenCount() === 0}
-                          onSelect={clearNotifications}
-                        >
-                          <DropdownMenu.ItemLabel>
-                            {language.t("sidebar.project.clearNotifications")}
-                          </DropdownMenu.ItemLabel>
-                        </DropdownMenu.Item>
                        <DropdownMenu.Separator />
                        <DropdownMenu.Item
                          data-action="project-close-menu"
--- a/packages/app/src/pages/layout/sidebar-project.tsx
+++ b/packages/app/src/pages/layout/sidebar-project.tsx
@@ -10,7 +10,6 @@ import { createSortable } from "@thisbeyond/solid-dnd"
 import { type LocalProject } from "@/context/layout"
 import { useGlobalSync } from "@/context/global-sync"
 import { useLanguage } from "@/context/language"
-import { useNotification } from "@/context/notification"
 import { ProjectIcon, SessionItem, type SessionItemProps } from "./sidebar-items"
 import { childMapByParent, displayName, sortedRootSessions } from "./helpers"
 import { projectSelected, projectTileActive } from "./sidebar-project-helpers"
@@ -60,7 +59,6 @@ const ProjectTile = (props: {
  selected: Accessor<boolean>
  active: Accessor<boolean>
  overlay: Accessor<boolean>
-  dirs: Accessor<string[]>
  onProjectMouseEnter: (worktree: string, event: MouseEvent) => void
  onProjectMouseLeave: (worktree: string) => void
  onProjectFocus: (worktree: string) => void
@@ -72,94 +70,73 @@ const ProjectTile = (props: {
  setMenu: (value: boolean) => void
  setOpen: (value: boolean) => void
  language: ReturnType<typeof useLanguage>
-}): JSX.Element => {
-  const notification = useNotification()
-  const unseenCount = createMemo(() =>
-    props.dirs().reduce((total, directory) => total + notification.project.unseenCount(directory), 0),
-  )
-
-  const clear = () =>
-    props
-      .dirs()
-      .filter((directory) => notification.project.unseenCount(directory) > 0)
-      .forEach((directory) => notification.project.markViewed(directory))
-
-  return (
-    <ContextMenu
-      modal={!props.sidebarHovering()}
-      onOpenChange={(value) => {
-        props.setMenu(value)
-        if (value) props.setOpen(false)
+}): JSX.Element => (
+  <ContextMenu
+    modal={!props.sidebarHovering()}
+    onOpenChange={(value) => {
+      props.setMenu(value)
+      if (value) props.setOpen(false)
+    }}
+  >
+    <ContextMenu.Trigger
+      as="button"
+      type="button"
+      aria-label={displayName(props.project)}
+      data-action="project-switch"
+      data-project={base64Encode(props.project.worktree)}
+      classList={{
+        "flex items-center justify-center size-10 p-1 rounded-lg overflow-hidden transition-colors cursor-default": true,
+        "bg-transparent border-2 border-icon-strong-base hover:bg-surface-base-hover": props.selected(),
+        "bg-transparent border border-transparent hover:bg-surface-base-hover hover:border-border-weak-base":
+          !props.selected() && !props.active(),
+        "bg-surface-base-hover border border-border-weak-base": !props.selected() && props.active(),
      }}
+      onMouseEnter={(event: MouseEvent) => {
+        if (!props.overlay()) return
+        props.onProjectMouseEnter(props.project.worktree, event)
+      }}
+      onMouseLeave={() => {
+        if (!props.overlay()) return
+        props.onProjectMouseLeave(props.project.worktree)
+      }}
+      onFocus={() => {
+        if (!props.overlay()) return
+        props.onProjectFocus(props.project.worktree)
+      }}
+      onClick={() => props.navigateToProject(props.project.worktree)}
+      onBlur={() => props.setOpen(false)}
    >
-      <ContextMenu.Trigger
-        as="button"
-        type="button"
-        aria-label={displayName(props.project)}
-        data-action="project-switch"
-        data-project={base64Encode(props.project.worktree)}
-        classList={{
-          "flex items-center justify-center size-10 p-1 rounded-lg overflow-hidden transition-colors cursor-default": true,
-          "bg-transparent border-2 border-icon-strong-base hover:bg-surface-base-hover": props.selected(),
-          "bg-transparent border border-transparent hover:bg-surface-base-hover hover:border-border-weak-base":
-            !props.selected() && !props.active(),
-          "bg-surface-base-hover border border-border-weak-base": !props.selected() && props.active(),
-        }}
-        onMouseEnter={(event: MouseEvent) => {
-          if (!props.overlay()) return
-          props.onProjectMouseEnter(props.project.worktree, event)
-        }}
-        onMouseLeave={() => {
-          if (!props.overlay()) return
-          props.onProjectMouseLeave(props.project.worktree)
-        }}
-        onFocus={() => {
-          if (!props.overlay()) return
-          props.onProjectFocus(props.project.worktree)
-        }}
-        onClick={() => props.navigateToProject(props.project.worktree)}
-        onBlur={() => props.setOpen(false)}
-      >
-        <ProjectIcon project={props.project} notify />
-      </ContextMenu.Trigger>
-      <ContextMenu.Portal mount={!props.mobile ? props.nav() : undefined}>
-        <ContextMenu.Content>
-          <ContextMenu.Item onSelect={() => props.showEditProjectDialog(props.project)}>
-            <ContextMenu.ItemLabel>{props.language.t("common.edit")}</ContextMenu.ItemLabel>
-          </ContextMenu.Item>
-          <ContextMenu.Item
-            data-action="project-workspaces-toggle"
-            data-project={base64Encode(props.project.worktree)}
-            disabled={props.project.vcs !== "git" && !props.workspacesEnabled(props.project)}
-            onSelect={() => props.toggleProjectWorkspaces(props.project)}
-          >
-            <ContextMenu.ItemLabel>
-              {props.workspacesEnabled(props.project)
-                ? props.language.t("sidebar.workspaces.disable")
-                : props.language.t("sidebar.workspaces.enable")}
-            </ContextMenu.ItemLabel>
-          </ContextMenu.Item>
-          <ContextMenu.Item
-            data-action="project-clear-notifications"
-            data-project={base64Encode(props.project.worktree)}
-            disabled={unseenCount() === 0}
-            onSelect={clear}
-          >
-            <ContextMenu.ItemLabel>{props.language.t("sidebar.project.clearNotifications")}</ContextMenu.ItemLabel>
-          </ContextMenu.Item>
-          <ContextMenu.Separator />
-          <ContextMenu.Item
-            data-action="project-close-menu"
-            data-project={base64Encode(props.project.worktree)}
-            onSelect={() => props.closeProject(props.project.worktree)}
-          >
-            <ContextMenu.ItemLabel>{props.language.t("common.close")}</ContextMenu.ItemLabel>
-          </ContextMenu.Item>
-        </ContextMenu.Content>
-      </ContextMenu.Portal>
-    </ContextMenu>
-  )
-}
+      <ProjectIcon project={props.project} notify />
+    </ContextMenu.Trigger>
+    <ContextMenu.Portal mount={!props.mobile ? props.nav() : undefined}>
+      <ContextMenu.Content>
+        <ContextMenu.Item onSelect={() => props.showEditProjectDialog(props.project)}>
+          <ContextMenu.ItemLabel>{props.language.t("common.edit")}</ContextMenu.ItemLabel>
+        </ContextMenu.Item>
+        <ContextMenu.Item
+          data-action="project-workspaces-toggle"
+          data-project={base64Encode(props.project.worktree)}
+          disabled={props.project.vcs !== "git" && !props.workspacesEnabled(props.project)}
+          onSelect={() => props.toggleProjectWorkspaces(props.project)}
+        >
+          <ContextMenu.ItemLabel>
+            {props.workspacesEnabled(props.project)
+              ? props.language.t("sidebar.workspaces.disable")
+              : props.language.t("sidebar.workspaces.enable")}
+          </ContextMenu.ItemLabel>
+        </ContextMenu.Item>
+        <ContextMenu.Separator />
+        <ContextMenu.Item
+          data-action="project-close-menu"
+          data-project={base64Encode(props.project.worktree)}
+          onSelect={() => props.closeProject(props.project.worktree)}
+        >
+          <ContextMenu.ItemLabel>{props.language.t("common.close")}</ContextMenu.ItemLabel>
+        </ContextMenu.Item>
+      </ContextMenu.Content>
+    </ContextMenu.Portal>
+  </ContextMenu>
+)

 const ProjectPreviewPanel = (props: {
  project: LocalProject
@@ -277,7 +254,6 @@ export const SortableProject = (props: {
  )
  const workspaces = createMemo(() => props.ctx.workspaceIds(props.project).slice(0, 2))
  const workspaceEnabled = createMemo(() => props.ctx.workspacesEnabled(props.project))
-  const dirs = createMemo(() => props.ctx.workspaceIds(props.project))
  const [open, setOpen] = createSignal(false)
  const [menu, setMenu] = createSignal(false)

@@ -328,7 +304,6 @@ export const SortableProject = (props: {
      selected={selected}
      active={active}
      overlay={overlay}
-      dirs={dirs}
      onProjectMouseEnter={props.ctx.onProjectMouseEnter}
      onProjectMouseLeave={props.ctx.onProjectMouseLeave}
      onProjectFocus={props.ctx.onProjectFocus}
--- a/packages/console/app/package.json
+++ b/packages/console/app/package.json
@@ -1,6 +1,6 @@
 {
  "name": "@opencode-ai/console-app",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "type": "module",
  "license": "MIT",
  "scripts": {
--- a/packages/console/core/package.json
+++ b/packages/console/core/package.json
@@ -1,7 +1,7 @@
 {
  "$schema": "https://json.schemastore.org/package.json",
  "name": "@opencode-ai/console-core",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "private": true,
  "type": "module",
  "license": "MIT",
--- a/packages/console/function/package.json
+++ b/packages/console/function/package.json
@@ -1,6 +1,6 @@
 {
  "name": "@opencode-ai/console-function",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "$schema": "https://json.schemastore.org/package.json",
  "private": true,
  "type": "module",
--- a/packages/console/mail/package.json
+++ b/packages/console/mail/package.json
@@ -1,6 +1,6 @@
 {
  "name": "@opencode-ai/console-mail",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "dependencies": {
    "@jsx-email/all": "2.2.3",
    "@jsx-email/cli": "1.4.3",
--- a/packages/desktop/package.json
+++ b/packages/desktop/package.json
@@ -1,7 +1,7 @@
 {
  "name": "@opencode-ai/desktop",
  "private": true,
-  "version": "1.2.4",
+  "version": "1.2.2",
  "type": "module",
  "license": "MIT",
  "scripts": {
--- a/packages/enterprise/package.json
+++ b/packages/enterprise/package.json
@@ -1,6 +1,6 @@
 {
  "name": "@opencode-ai/enterprise",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "private": true,
  "type": "module",
  "license": "MIT",
--- a/packages/extensions/zed/extension.toml
+++ b/packages/extensions/zed/extension.toml
@@ -1,7 +1,7 @@
 id = "opencode"
 name = "OpenCode"
 description = "The open source coding agent."
-version = "1.2.4"
+version = "1.2.2"
 schema_version = 1
 authors = ["Anomaly"]
 repository = "https://github.com/anomalyco/opencode"
@@ -11,26 +11,26 @@ name = "OpenCode"
 icon = "./icons/opencode.svg"

 [agent_servers.opencode.targets.darwin-aarch64]
-archive = "https://github.com/anomalyco/opencode/releases/download/v1.2.4/opencode-darwin-arm64.zip"
+archive = "https://github.com/anomalyco/opencode/releases/download/v1.2.2/opencode-darwin-arm64.zip"
 cmd = "./opencode"
 args = ["acp"]

 [agent_servers.opencode.targets.darwin-x86_64]
-archive = "https://github.com/anomalyco/opencode/releases/download/v1.2.4/opencode-darwin-x64.zip"
+archive = "https://github.com/anomalyco/opencode/releases/download/v1.2.2/opencode-darwin-x64.zip"
 cmd = "./opencode"
 args = ["acp"]

 [agent_servers.opencode.targets.linux-aarch64]
-archive = "https://github.com/anomalyco/opencode/releases/download/v1.2.4/opencode-linux-arm64.tar.gz"
+archive = "https://github.com/anomalyco/opencode/releases/download/v1.2.2/opencode-linux-arm64.tar.gz"
 cmd = "./opencode"
 args = ["acp"]

 [agent_servers.opencode.targets.linux-x86_64]
-archive = "https://github.com/anomalyco/opencode/releases/download/v1.2.4/opencode-linux-x64.tar.gz"
+archive = "https://github.com/anomalyco/opencode/releases/download/v1.2.2/opencode-linux-x64.tar.gz"
 cmd = "./opencode"
 args = ["acp"]

 [agent_servers.opencode.targets.windows-x86_64]
-archive = "https://github.com/anomalyco/opencode/releases/download/v1.2.4/opencode-windows-x64.zip"
+archive = "https://github.com/anomalyco/opencode/releases/download/v1.2.2/opencode-windows-x64.zip"
 cmd = "./opencode.exe"
 args = ["acp"]
--- a/packages/function/package.json
+++ b/packages/function/package.json
@@ -1,6 +1,6 @@
 {
  "name": "@opencode-ai/function",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "$schema": "https://json.schemastore.org/package.json",
  "private": true,
  "type": "module",
--- a/packages/opencode/package.json
+++ b/packages/opencode/package.json
@@ -1,6 +1,6 @@
 {
  "$schema": "https://json.schemastore.org/package.json",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "name": "opencode",
  "type": "module",
  "license": "MIT",
--- a/packages/opencode/src/agent/agent.ts
+++ b/packages/opencode/src/agent/agent.ts
@@ -19,7 +19,6 @@ import { Global } from "@/global"
 import path from "path"
 import { Plugin } from "@/plugin"
 import { Skill } from "../skill"
-import { Reference } from "@/reference"

 export namespace Agent {
  export const Info = z
@@ -74,17 +73,6 @@ export namespace Agent {
    })
    const user = PermissionNext.fromConfig(cfg.permission ?? {})

-    let explorePrompt = PROMPT_EXPLORE
-    if (cfg.references?.length) {
-      const refs = cfg.references.map((r) => Reference.parse(r))
-      const fresh = await Promise.all(refs.map((r) => Reference.ensureFresh(r)))
-      const valid = fresh.filter(Boolean) as Reference.Info[]
-      if (valid.length > 0) {
-        explorePrompt +=
-          "\n\n<references>\n" + valid.map((r) => `- ${r.url} -> ${r.path}`).join("\n") + "\n</references>"
-      }
-    }
-
    const result: Record<string, Info> = {
      build: {
        name: "build",
@@ -155,17 +143,12 @@ export namespace Agent {
            read: "allow",
            external_directory: {
              [Truncate.GLOB]: "allow",
-              [path.join(Global.Path.reference, "*")]: "allow",
            },
          }),
          user,
        ),
-        description: `Fast agent specialized for exploring codebases. Use this when you need to quickly find files by patterns (eg. "src/components/**/*.tsx"), search code for keywords (eg. "API endpoints"), or answer questions about the codebase (eg. "how do API endpoints work?"). When calling this agent, specify the desired thoroughness level: "quick" for basic searches, "medium" for moderate exploration, or "very thorough" for comprehensive analysis across multiple locations and naming conventions.${
-          cfg.references?.length
-            ? `\n\nAlways use this to answer questions about the following referenced projects:\n${cfg.references.map((r) => `- ${r}`).join("\n")}`
-            : ""
-        }`,
-        prompt: explorePrompt,
+        description: `Fast agent specialized for exploring codebases. Use this when you need to quickly find files by patterns (eg. "src/components/**/*.tsx"), search code for keywords (eg. "API endpoints"), or answer questions about the codebase (eg. "how do API endpoints work?"). When calling this agent, specify the desired thoroughness level: "quick" for basic searches, "medium" for moderate exploration, or "very thorough" for comprehensive analysis across multiple locations and naming conventions.`,
+        prompt: PROMPT_EXPLORE,
        options: {},
        mode: "subagent",
        native: true,
--- a/packages/opencode/src/agent/prompt/explore.txt
+++ b/packages/opencode/src/agent/prompt/explore.txt
@@ -15,13 +15,4 @@ Guidelines:
 - For clear communication, avoid using emojis
 - Do not create any files, or run bash commands that modify the user's system state in any way

-Referenced projects:
-When configured, you also have access to referenced projects - external codebases that may contain relevant code or patterns. Use these when:
- The user asks about code not found in the main project
- You need to understand how a library or dependency works
- The user mentions an external repository or package
- Searching for patterns across multiple codebases
-
-Search referenced projects by using their absolute paths (provided in a <references> tag) with Glob, Grep, and Read tools.
-
 Complete the user's search request efficiently and report your findings clearly.
--- a/packages/opencode/src/cli/cmd/db.ts
+++ b/packages/opencode/src/cli/cmd/db.ts
@@ -1,68 +0,0 @@
-import type { Argv } from "yargs"
-import { spawn } from "child_process"
-import { Database } from "../../storage/db"
-import { Database as BunDatabase } from "bun:sqlite"
-import { UI } from "../ui"
-import { cmd } from "./cmd"
-
-const QueryCommand = cmd({
-  command: "$0 [query]",
-  describe: "open an interactive sqlite3 shell or run a query",
-  builder: (yargs: Argv) => {
-    return yargs
-      .positional("query", {
-        type: "string",
-        describe: "SQL query to execute",
-      })
-      .option("format", {
-        type: "string",
-        choices: ["json", "tsv"],
-        default: "tsv",
-        describe: "Output format",
-      })
-  },
-  handler: async (args: { query?: string; format: string }) => {
-    const query = args.query as string | undefined
-    if (query) {
-      const db = new BunDatabase(Database.Path, { readonly: true })
-      try {
-        const result = db.query(query).all() as Record<string, unknown>[]
-        if (args.format === "json") {
-          console.log(JSON.stringify(result, null, 2))
-        } else if (result.length > 0) {
-          const keys = Object.keys(result[0])
-          console.log(keys.join("\t"))
-          for (const row of result) {
-            console.log(keys.map((k) => row[k]).join("\t"))
-          }
-        }
-      } catch (err) {
-        UI.error(err instanceof Error ? err.message : String(err))
-        process.exit(1)
-      }
-      db.close()
-      return
-    }
-    const child = spawn("sqlite3", [Database.Path], {
-      stdio: "inherit",
-    })
-    await new Promise((resolve) => child.on("close", resolve))
-  },
-})
-
-const PathCommand = cmd({
-  command: "path",
-  describe: "print the database path",
-  handler: () => {
-    console.log(Database.Path)
-  },
-})
-
-export const DbCommand = cmd({
-  command: "db",
-  describe: "database tools",
-  builder: (yargs: Argv) => {
-    return yargs.command(QueryCommand).command(PathCommand).demandCommand()
-  },
-  handler: () => {},
-})
--- a/packages/opencode/src/cli/cmd/tui/routes/session/index.tsx
+++ b/packages/opencode/src/cli/cmd/tui/routes/session/index.tsx
@@ -152,6 +152,12 @@ export function Session() {
  const [showHeader, setShowHeader] = kv.signal("header_visible", true)
  const [diffWrapMode] = kv.signal<"word" | "none">("diff_wrap_mode", "word")
  const [animationsEnabled, setAnimationsEnabled] = kv.signal("animations_enabled", true)
+  const [clearedDiff, setClearedDiff] = createSignal<Record<string, Record<string, true>>>({})
+  const diff = createMemo(() => sync.data.session_diff[route.sessionID] ?? [])
+  const diffKey = (item: { file: string; additions: number; deletions: number }) =>
+    `${item.file}:${item.additions}:${item.deletions}`
+  const hiddenDiff = createMemo(() => clearedDiff()[route.sessionID] ?? {})
+  const visibleDiff = createMemo(() => diff().filter((item) => !hiddenDiff()[diffKey(item)]))

  const wide = createMemo(() => dimensions().width > 120)
  const sidebarVisible = createMemo(() => {
@@ -163,6 +169,32 @@ export function Session() {
  const showTimestamps = createMemo(() => timestamps() === "show")
  const contentWidth = createMemo(() => dimensions().width - (sidebarVisible() ? 42 : 0) - 4)

+  createEffect(() => {
+    const current = new Set(diff().map((item) => diffKey(item)))
+    const hidden = hiddenDiff()
+    const keys = Object.keys(hidden)
+    if (!keys.length) return
+    const nextHidden = keys.reduce<Record<string, true>>((acc, key) => {
+      if (!current.has(key)) return acc
+      acc[key] = true
+      return acc
+    }, {})
+    if (Object.keys(nextHidden).length === keys.length) return
+    setClearedDiff((prev) => {
+      const target = prev[route.sessionID]
+      if (!target) return prev
+      if (!Object.keys(nextHidden).length) {
+        const next = { ...prev }
+        delete next[route.sessionID]
+        return next
+      }
+      return {
+        ...prev,
+        [route.sessionID]: nextHidden,
+      }
+    })
+  })
+
  const scrollAcceleration = createMemo(() => {
    const tui = sync.data.config.tui
    if (tui?.scroll_acceleration?.enabled) {
@@ -526,6 +558,26 @@ export function Session() {
        dialog.clear()
      },
    },
+    {
+      title: "Clear Modified",
+      value: "session.modified.clear",
+      category: "Session",
+      enabled: !session()?.parentID && visibleDiff().length > 0,
+      onSelect: (dialog) => {
+        const nextHidden = diff().reduce<Record<string, true>>((acc, item) => {
+          acc[diffKey(item)] = true
+          return acc
+        }, {})
+        setClearedDiff((prev) => ({
+          ...prev,
+          [route.sessionID]: {
+            ...(prev[route.sessionID] ?? {}),
+            ...nextHidden,
+          },
+        }))
+        dialog.clear()
+      },
+    },
    {
      title: conceal() ? "Disable code concealment" : "Enable code concealment",
      value: "session.toggle.conceal",
@@ -1120,7 +1172,7 @@ export function Session() {
        <Show when={sidebarVisible()}>
          <Switch>
            <Match when={wide()}>
-              <Sidebar sessionID={route.sessionID} />
+              <Sidebar sessionID={route.sessionID} hiddenDiff={hiddenDiff()} />
            </Match>
            <Match when={!wide()}>
              <box
@@ -1132,7 +1184,7 @@ export function Session() {
                alignItems="flex-end"
                backgroundColor={RGBA.fromInts(0, 0, 0, 70)}
              >
-                <Sidebar sessionID={route.sessionID} />
+                <Sidebar sessionID={route.sessionID} hiddenDiff={hiddenDiff()} />
              </box>
            </Match>
          </Switch>
--- a/packages/opencode/src/cli/cmd/tui/routes/session/sidebar.tsx
+++ b/packages/opencode/src/cli/cmd/tui/routes/session/sidebar.tsx
@@ -12,11 +12,16 @@ import { useDirectory } from "../../context/directory"
 import { useKV } from "../../context/kv"
 import { TodoItem } from "../../component/todo-item"

-export function Sidebar(props: { sessionID: string; overlay?: boolean }) {
+export function Sidebar(props: { sessionID: string; overlay?: boolean; hiddenDiff?: Record<string, true> }) {
  const sync = useSync()
  const { theme } = useTheme()
  const session = createMemo(() => sync.session.get(props.sessionID)!)
-  const diff = createMemo(() => sync.data.session_diff[props.sessionID] ?? [])
+  const diff = createMemo(() => {
+    const hidden = props.hiddenDiff ?? {}
+    return (sync.data.session_diff[props.sessionID] ?? []).filter(
+      (item) => !hidden[`${item.file}:${item.additions}:${item.deletions}`],
+    )
+  })
  const todo = createMemo(() => sync.data.todo[props.sessionID] ?? [])
  const messages = createMemo(() => sync.data.message[props.sessionID] ?? [])

--- a/packages/opencode/src/config/config.ts
+++ b/packages/opencode/src/config/config.ts
@@ -1192,10 +1192,6 @@ export namespace Config {
            .describe("Timeout in milliseconds for model context protocol (MCP) requests"),
        })
        .optional(),
-      references: z
-        .array(z.string())
-        .optional()
-        .describe("Git repositories or local paths to reference from subagents"),
    })
    .strict()
    .meta({
--- a/packages/opencode/src/global/index.ts
+++ b/packages/opencode/src/global/index.ts
@@ -20,7 +20,6 @@ export namespace Global {
    bin: path.join(data, "bin"),
    log: path.join(data, "log"),
    cache,
-    reference: path.join(cache, "references"),
    config,
    state,
  }
@@ -32,7 +31,6 @@ await Promise.all([
  fs.mkdir(Global.Path.state, { recursive: true }),
  fs.mkdir(Global.Path.log, { recursive: true }),
  fs.mkdir(Global.Path.bin, { recursive: true }),
-  fs.mkdir(Global.Path.reference, { recursive: true }),
 ])

 const CACHE_VERSION = "21"
--- a/packages/opencode/src/index.ts
+++ b/packages/opencode/src/index.ts
@@ -26,7 +26,6 @@ import { EOL } from "os"
 import { WebCommand } from "./cli/cmd/web"
 import { PrCommand } from "./cli/cmd/pr"
 import { SessionCommand } from "./cli/cmd/session"
-import { DbCommand } from "./cli/cmd/db"
 import path from "path"
 import { Global } from "./global"
 import { JsonMigration } from "./storage/json-migration"
@@ -139,7 +138,6 @@ const cli = yargs(hideBin(process.argv))
  .command(GithubCommand)
  .command(PrCommand)
  .command(SessionCommand)
-  .command(DbCommand)
  .fail((msg, err) => {
    if (
      msg?.startsWith("Unknown argument") ||
--- a/packages/opencode/src/reference/index.ts
+++ b/packages/opencode/src/reference/index.ts
@@ -1,131 +0,0 @@
-import path from "path"
-import { mkdir, stat } from "fs/promises"
-import { createHash } from "crypto"
-import { Global } from "../global"
-import { Config } from "../config/config"
-import { Log } from "../util/log"
-import { git } from "../util/git"
-import { Instance } from "../project/instance"
-
-export namespace Reference {
-  const log = Log.create({ service: "reference" })
-
-  const STALE_THRESHOLD_MS = 60 * 60 * 1000
-
-  export interface Info {
-    url: string
-    path: string
-    branch?: string
-    type: "git" | "local"
-  }
-
-  function hashUrl(url: string): string {
-    return createHash("sha256").update(url).digest("hex").slice(0, 16)
-  }
-
-  export function parse(url: string): Info {
-    if (url.startsWith("/") || url.startsWith("~") || url.startsWith(".")) {
-      const resolved = url.startsWith("~")
-        ? path.join(Global.Path.home, url.slice(1))
-        : url.startsWith(".")
-          ? path.resolve(Instance.worktree, url)
-          : url
-      return {
-        url,
-        path: resolved,
-        type: "local",
-      }
-    }
-
-    const branchMatch = url.match(/^(.+)#(.+)$/)
-    const gitUrl = branchMatch ? branchMatch[1] : url
-    const branch = branchMatch ? branchMatch[2] : undefined
-
-    return {
-      url: gitUrl,
-      path: path.join(Global.Path.reference, hashUrl(gitUrl)),
-      branch,
-      type: "git",
-    }
-  }
-
-  export async function isStale(ref: Info): Promise<boolean> {
-    if (ref.type === "local") return false
-
-    const fetchHead = path.join(ref.path, ".git", "FETCH_HEAD")
-    const s = await stat(fetchHead).catch(() => null)
-    if (!s) return true
-
-    return Date.now() - s.mtime.getTime() > STALE_THRESHOLD_MS
-  }
-
-  export async function fetch(ref: Info): Promise<boolean> {
-    if (ref.type === "local") {
-      const exists = await stat(ref.path).catch(() => null)
-      if (!exists?.isDirectory()) {
-        log.error("local reference not found", { path: ref.path })
-        return false
-      }
-      return true
-    }
-
-    await mkdir(path.dirname(ref.path), { recursive: true })
-
-    const isCloned = await stat(path.join(ref.path, ".git")).catch(() => null)
-
-    if (!isCloned) {
-      log.info("cloning reference", { url: ref.url, branch: ref.branch })
-      const args = ["clone", "--depth", "1"]
-      if (ref.branch) {
-        args.push("--branch", ref.branch)
-      }
-      args.push(ref.url, ref.path)
-
-      const result = await git(args, { cwd: Global.Path.reference })
-      if (result.exitCode !== 0) {
-        log.error("failed to clone", { url: ref.url, stderr: result.stderr.toString() })
-        return false
-      }
-      return true
-    }
-
-    log.info("fetching reference", { url: ref.url })
-    const fetchResult = await git(["fetch"], { cwd: ref.path })
-    if (fetchResult.exitCode !== 0) {
-      log.warn("failed to fetch, using cached", { url: ref.url })
-      return true
-    }
-
-    if (ref.branch) {
-      const checkoutResult = await git(["checkout", ref.branch], { cwd: ref.path })
-      if (checkoutResult.exitCode !== 0) {
-        log.warn("failed to checkout branch, using current", { url: ref.url, branch: ref.branch })
-      }
-    }
-
-    return true
-  }
-
-  export async function ensureFresh(ref: Info): Promise<Info | null> {
-    if (await isStale(ref)) {
-      const success = await fetch(ref)
-      if (!success && ref.type === "git") {
-        const exists = await stat(ref.path).catch(() => null)
-        if (!exists) return null
-      }
-    }
-    return ref
-  }
-
-  export async function list(): Promise<Info[]> {
-    const cfg = await Config.get()
-    const urls = cfg.references ?? []
-    return urls.map(parse)
-  }
-
-  export async function directories(): Promise<string[]> {
-    const refs = await list()
-    const fresh = await Promise.all(refs.map(ensureFresh))
-    return fresh.filter(Boolean).map((r) => r!.path)
-  }
-}
--- a/packages/opencode/src/storage/db.ts
+++ b/packages/opencode/src/storage/db.ts
@@ -25,7 +25,6 @@ export const NotFoundError = NamedError.create(
 const log = Log.create({ service: "db" })

 export namespace Database {
-  export const Path = path.join(Global.Path.data, "opencode.db")
  type Schema = typeof schema
  export type Transaction = SQLiteTransaction<"sync", void, Schema>

--- a/packages/opencode/src/storage/json-migration.ts
+++ b/packages/opencode/src/storage/json-migration.ts
@@ -152,7 +152,6 @@ export namespace JsonMigration {
    sqlite.exec("BEGIN TRANSACTION")

    // Migrate projects first (no FK deps)
-    // Derive all IDs from file paths, not JSON content
    const projectIds = new Set<string>()
    const projectValues = [] as any[]
    for (let i = 0; i < projectFiles.length; i += batchSize) {
@@ -162,10 +161,13 @@ export namespace JsonMigration {
      for (let j = 0; j < batch.length; j++) {
        const data = batch[j]
        if (!data) continue
-        const id = path.basename(projectFiles[i + j], ".json")
-        projectIds.add(id)
+        if (!data?.id) {
+          errs.push(`project missing id: ${projectFiles[i + j]}`)
+          continue
+        }
+        projectIds.add(data.id)
        projectValues.push({
-          id,
+          id: data.id,
          worktree: data.worktree ?? "/",
          vcs: data.vcs,
          name: data.name ?? undefined,
@@ -184,9 +186,6 @@ export namespace JsonMigration {
    log.info("migrated projects", { count: stats.projects, duration: Math.round(performance.now() - start) })

    // Migrate sessions (depends on projects)
-    // Derive all IDs from directory/file paths, not JSON content, since earlier
-    // migrations may have moved sessions to new directories without updating the JSON
-    const sessionProjects = sessionFiles.map((file) => path.basename(path.dirname(file)))
    const sessionIds = new Set<string>()
    const sessionValues = [] as any[]
    for (let i = 0; i < sessionFiles.length; i += batchSize) {
@@ -196,16 +195,18 @@ export namespace JsonMigration {
      for (let j = 0; j < batch.length; j++) {
        const data = batch[j]
        if (!data) continue
-        const id = path.basename(sessionFiles[i + j], ".json")
-        const projectID = sessionProjects[i + j]
-        if (!projectIds.has(projectID)) {
+        if (!data?.id || !data?.projectID) {
+          errs.push(`session missing id or projectID: ${sessionFiles[i + j]}`)
+          continue
+        }
+        if (!projectIds.has(data.projectID)) {
          orphans.sessions++
          continue
        }
-        sessionIds.add(id)
+        sessionIds.add(data.id)
        sessionValues.push({
-          id,
-          project_id: projectID,
+          id: data.id,
+          project_id: data.projectID,
          parent_id: data.parentID ?? null,
          slug: data.slug ?? "",
          directory: data.directory ?? "",
@@ -252,7 +253,11 @@ export namespace JsonMigration {
        const data = batch[j]
        if (!data) continue
        const file = allMessageFiles[i + j]
-        const id = path.basename(file, ".json")
+        const id = data.id ?? path.basename(file, ".json")
+        if (!id) {
+          errs.push(`message missing id: ${file}`)
+          continue
+        }
        const sessionID = allMessageSessions[i + j]
        messageSessions.set(id, sessionID)
        const rest = data
@@ -282,8 +287,12 @@ export namespace JsonMigration {
        const data = batch[j]
        if (!data) continue
        const file = partFiles[i + j]
-        const id = path.basename(file, ".json")
-        const messageID = path.basename(path.dirname(file))
+        const id = data.id ?? path.basename(file, ".json")
+        const messageID = data.messageID ?? path.basename(path.dirname(file))
+        if (!id || !messageID) {
+          errs.push(`part missing id/messageID/sessionID: ${file}`)
+          continue
+        }
        const sessionID = messageSessions.get(messageID)
        if (!sessionID) {
          errs.push(`part missing message session: ${file}`)
--- a/packages/opencode/test/storage/json-migration.test.ts
+++ b/packages/opencode/test/storage/json-migration.test.ts
@@ -128,28 +128,6 @@ describe("JSON to SQLite migration", () => {
    expect(projects[0].sandboxes).toEqual(["/test/sandbox"])
  })

-  test("uses filename for project id when JSON has different value", async () => {
-    await Bun.write(
-      path.join(storageDir, "project", "proj_filename.json"),
-      JSON.stringify({
-        id: "proj_different_in_json", // Stale! Should be ignored
-        worktree: "/test/path",
-        vcs: "git",
-        name: "Test Project",
-        sandboxes: [],
-      }),
-    )
-
-    const stats = await JsonMigration.run(sqlite)
-
-    expect(stats?.projects).toBe(1)
-
-    const db = drizzle({ client: sqlite })
-    const projects = db.select().from(ProjectTable).all()
-    expect(projects.length).toBe(1)
-    expect(projects[0].id).toBe("proj_filename") // Uses filename, not JSON id
-  })
-
  test("migrates project with commands", async () => {
    await writeProject(storageDir, {
      id: "proj_with_commands",
@@ -307,74 +285,6 @@ describe("JSON to SQLite migration", () => {
    expect(parts[0].data).not.toHaveProperty("sessionID")
  })

-  test("uses filename for message id when JSON has different value", async () => {
-    await writeProject(storageDir, {
-      id: "proj_test123abc",
-      worktree: "/",
-      time: { created: Date.now(), updated: Date.now() },
-      sandboxes: [],
-    })
-    await writeSession(storageDir, "proj_test123abc", { ...fixtures.session })
-    await Bun.write(
-      path.join(storageDir, "message", "ses_test456def", "msg_from_filename.json"),
-      JSON.stringify({
-        id: "msg_different_in_json", // Stale! Should be ignored
-        sessionID: "ses_test456def",
-        role: "user",
-        agent: "default",
-        time: { created: 1700000000000 },
-      }),
-    )
-
-    const stats = await JsonMigration.run(sqlite)
-
-    expect(stats?.messages).toBe(1)
-
-    const db = drizzle({ client: sqlite })
-    const messages = db.select().from(MessageTable).all()
-    expect(messages.length).toBe(1)
-    expect(messages[0].id).toBe("msg_from_filename") // Uses filename, not JSON id
-    expect(messages[0].session_id).toBe("ses_test456def")
-  })
-
-  test("uses paths for part id and messageID when JSON has different values", async () => {
-    await writeProject(storageDir, {
-      id: "proj_test123abc",
-      worktree: "/",
-      time: { created: Date.now(), updated: Date.now() },
-      sandboxes: [],
-    })
-    await writeSession(storageDir, "proj_test123abc", { ...fixtures.session })
-    await Bun.write(
-      path.join(storageDir, "message", "ses_test456def", "msg_realmsgid.json"),
-      JSON.stringify({
-        role: "user",
-        agent: "default",
-        time: { created: 1700000000000 },
-      }),
-    )
-    await Bun.write(
-      path.join(storageDir, "part", "msg_realmsgid", "prt_from_filename.json"),
-      JSON.stringify({
-        id: "prt_different_in_json", // Stale! Should be ignored
-        messageID: "msg_different_in_json", // Stale! Should be ignored
-        sessionID: "ses_test456def",
-        type: "text",
-        text: "Hello",
-      }),
-    )
-
-    const stats = await JsonMigration.run(sqlite)
-
-    expect(stats?.parts).toBe(1)
-
-    const db = drizzle({ client: sqlite })
-    const parts = db.select().from(PartTable).all()
-    expect(parts.length).toBe(1)
-    expect(parts[0].id).toBe("prt_from_filename") // Uses filename, not JSON id
-    expect(parts[0].message_id).toBe("msg_realmsgid") // Uses parent dir, not JSON messageID
-  })
-
  test("skips orphaned sessions (no parent project)", async () => {
    await Bun.write(
      path.join(storageDir, "session", "proj_test123abc", "ses_orphan.json"),
@@ -394,72 +304,6 @@ describe("JSON to SQLite migration", () => {
    expect(stats?.sessions).toBe(0)
  })

-  test("uses directory path for projectID when JSON has stale value", async () => {
-    // Simulates the scenario where earlier migration moved sessions to new
-    // git-based project directories but didn't update the projectID field
-    const gitBasedProjectID = "abc123gitcommit"
-    await writeProject(storageDir, {
-      id: gitBasedProjectID,
-      worktree: "/test/path",
-      vcs: "git",
-      time: { created: Date.now(), updated: Date.now() },
-      sandboxes: [],
-    })
-
-    // Session is in the git-based directory but JSON still has old projectID
-    await writeSession(storageDir, gitBasedProjectID, {
-      id: "ses_migrated",
-      projectID: "old-project-name", // Stale! Should be ignored
-      slug: "migrated-session",
-      directory: "/test/path",
-      title: "Migrated Session",
-      version: "1.0.0",
-      time: { created: 1700000000000, updated: 1700000001000 },
-    })
-
-    const stats = await JsonMigration.run(sqlite)
-
-    expect(stats?.sessions).toBe(1)
-
-    const db = drizzle({ client: sqlite })
-    const sessions = db.select().from(SessionTable).all()
-    expect(sessions.length).toBe(1)
-    expect(sessions[0].id).toBe("ses_migrated")
-    expect(sessions[0].project_id).toBe(gitBasedProjectID) // Uses directory, not stale JSON
-  })
-
-  test("uses filename for session id when JSON has different value", async () => {
-    await writeProject(storageDir, {
-      id: "proj_test123abc",
-      worktree: "/test/path",
-      time: { created: Date.now(), updated: Date.now() },
-      sandboxes: [],
-    })
-
-    await Bun.write(
-      path.join(storageDir, "session", "proj_test123abc", "ses_from_filename.json"),
-      JSON.stringify({
-        id: "ses_different_in_json", // Stale! Should be ignored
-        projectID: "proj_test123abc",
-        slug: "test-session",
-        directory: "/test/path",
-        title: "Test Session",
-        version: "1.0.0",
-        time: { created: 1700000000000, updated: 1700000001000 },
-      }),
-    )
-
-    const stats = await JsonMigration.run(sqlite)
-
-    expect(stats?.sessions).toBe(1)
-
-    const db = drizzle({ client: sqlite })
-    const sessions = db.select().from(SessionTable).all()
-    expect(sessions.length).toBe(1)
-    expect(sessions[0].id).toBe("ses_from_filename") // Uses filename, not JSON id
-    expect(sessions[0].project_id).toBe("proj_test123abc")
-  })
-
  test("is idempotent (running twice doesn't duplicate)", async () => {
    await writeProject(storageDir, {
      id: "proj_test123abc",
@@ -822,11 +666,8 @@ describe("JSON to SQLite migration", () => {

    const stats = await JsonMigration.run(sqlite)

-    // Projects: proj_test123abc (valid), proj_missing_id (now derives id from filename)
-    // Sessions: ses_test456def (valid), ses_missing_project (now uses dir path),
-    // ses_orphan (now uses dir path, ignores stale projectID)
-    expect(stats.projects).toBe(2)
-    expect(stats.sessions).toBe(3)
+    expect(stats.projects).toBe(1)
+    expect(stats.sessions).toBe(1)
    expect(stats.messages).toBe(1)
    expect(stats.parts).toBe(1)
    expect(stats.todos).toBe(1)
@@ -835,8 +676,8 @@ describe("JSON to SQLite migration", () => {
    expect(stats.errors.length).toBeGreaterThanOrEqual(6)

    const db = drizzle({ client: sqlite })
-    expect(db.select().from(ProjectTable).all().length).toBe(2)
-    expect(db.select().from(SessionTable).all().length).toBe(3)
+    expect(db.select().from(ProjectTable).all().length).toBe(1)
+    expect(db.select().from(SessionTable).all().length).toBe(1)
    expect(db.select().from(MessageTable).all().length).toBe(1)
    expect(db.select().from(PartTable).all().length).toBe(1)
    expect(db.select().from(TodoTable).all().length).toBe(1)
--- a/packages/plugin/package.json
+++ b/packages/plugin/package.json
@@ -1,7 +1,7 @@
 {
  "$schema": "https://json.schemastore.org/package.json",
  "name": "@opencode-ai/plugin",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "type": "module",
  "license": "MIT",
  "scripts": {
--- a/packages/sdk/js/package.json
+++ b/packages/sdk/js/package.json
@@ -1,7 +1,7 @@
 {
  "$schema": "https://json.schemastore.org/package.json",
  "name": "@opencode-ai/sdk",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "type": "module",
  "license": "MIT",
  "scripts": {
--- a/packages/slack/package.json
+++ b/packages/slack/package.json
@@ -1,6 +1,6 @@
 {
  "name": "@opencode-ai/slack",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "type": "module",
  "license": "MIT",
  "scripts": {
--- a/packages/ui/package.json
+++ b/packages/ui/package.json
@@ -1,6 +1,6 @@
 {
  "name": "@opencode-ai/ui",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "type": "module",
  "license": "MIT",
  "exports": {
--- a/packages/util/package.json
+++ b/packages/util/package.json
@@ -1,6 +1,6 @@
 {
  "name": "@opencode-ai/util",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "private": true,
  "type": "module",
  "license": "MIT",
--- a/packages/web/package.json
+++ b/packages/web/package.json
@@ -2,7 +2,7 @@
  "name": "@opencode-ai/web",
  "type": "module",
  "license": "MIT",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "scripts": {
    "dev": "astro dev",
    "dev:remote": "VITE_API_URL=https://api.opencode.ai astro dev",
--- a/sdks/vscode/package.json
+++ b/sdks/vscode/package.json
@@ -2,7 +2,7 @@
  "name": "opencode",
  "displayName": "opencode",
  "description": "opencode for VS Code",
-  "version": "1.2.4",
+  "version": "1.2.2",
  "publisher": "sst-dev",
  "repository": {
    "type": "git",
Author	SHA1	Message	Date
Ryan Vogel	22f69cd315	fix: keep cleared modified files hidden across new diff updates	2026-02-14 17:03:23 -05:00
Ryan Vogel	b67fd167c9	fix: let users clear sidebar modified files without mutating diff state	2026-02-14 15:59:53 -05:00