* Extract permission response command
* Extract create agent command
* Extract agent lifecycle commands
* refactor(server): extract worktree archive command
* refactor(server): share worktree create list commands
* test(server): update close items lifecycle fakes
* Fix MCP command stack CI regressions
* Restore MCP update_agent no-op success semantics
After the rebase, MCP `update_agent` was returning `success: false` for empty/no-op calls (no name, no labels, no settings). Origin/main returned `success: true` unconditionally. The audit flagged the change as out of scope for this stack — restore the old behavior at the MCP boundary.
Session WS path keeps its accepted/rejected semantics (it surfaces an error when nothing was provided so the client can prompt the user).
* Fix agent metadata delegation and mode persistence
* Update MCP update_agent test for metadata delegation
* Fix stored agent metadata timestamps
