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## Why This PR builds on [#22610](https://github.com/openai/codex/pull/22610) and is the app-server side of the migration from mutable per-turn `SandboxPolicy` replacement toward selecting immutable permission profiles by id plus mutable runtime workspace roots. Once permission profiles can carry their own immutable `workspace_roots`, app-server no longer needs to mutate the selected `PermissionProfile` just to represent thread-specific filesystem context. The mutable part now lives on the thread as explicit `runtimeWorkspaceRoots`, while `:workspace_roots` remains symbolic until the sandbox is realized for a turn. ## What Changed - Replaced the v2 permission-selection wrapper surface with plain profile ids for `thread/start`, `thread/resume`, `thread/fork`, and `turn/start`. - Removed the API surface for profile modifications (`PermissionProfileSelectionParams`, `PermissionProfileModificationParams`, `ActivePermissionProfileModification`). - Added experimental `runtimeWorkspaceRoots` fields to the thread lifecycle and turn-start APIs. - Threaded runtime workspace roots through core session/thread snapshots, turn overrides, app-server request handling, and command execution permission resolution. - Kept session permission state symbolic so later runtime root updates and cwd-only implicit-root retargeting rebind `:workspace_roots` correctly. - Updated the embedded clients just enough to send and restore the new thread state. - Refreshed the generated schema/TypeScript artifacts and the app-server README to match the new contract. ## Verification Targeted coverage for this layer lives in: - `codex-rs/app-server-protocol/src/protocol/v2/tests.rs` - `codex-rs/app-server/tests/suite/v2/thread_start.rs` - `codex-rs/app-server/tests/suite/v2/thread_resume.rs` - `codex-rs/app-server/tests/suite/v2/turn_start.rs` - `codex-rs/core/src/session/tests.rs` The key regression checks exercise that: - `runtimeWorkspaceRoots` resolve against the effective cwd on thread start. - Profile-declared workspace roots are excluded from the runtime workspace roots returned by app-server. - A turn-level runtime workspace-root update persists onto the thread and is returned by `thread/resume`. - A named permission profile selected on one turn remains symbolic so a later runtime-root-only turn update changes the actual sandbox writes. - A cwd-only turn update retargets the implicit runtime cwd root while preserving additional runtime roots. - The protocol fixtures and generated client artifacts stay in sync with the string-based permission selection contract. --- [//]: # (BEGIN SAPLING FOOTER) Stack created with [Sapling](https://sapling-scm.com). Best reviewed with [ReviewStack](https://reviewstack.dev/openai/codex/pull/22611). * #22612 * __->__ #22611