Merge remote-tracking branch 'origin/master' into codex/rfc-subagent-background-tasks

Adopts #185 (dsh-timeout: clampTimeout/deadline/timeoutOf drive bash
run() timeout classification; runBash loses its own timer) and #108
(ask_user_question) across the task-runtime rework: bash-local keeps
the BashProcess handle shape with master's deadline mechanics, tool
catalogs/expectations carry both the task_* and ask-user tools, and
generated docs are regenerated on the union.

tsconfig.base.json

@@ -46,9 +46,11 @@
         "./packages/code-runtime/*/src",
         "./packages/fs/*/src",
         "./packages/compact/*/src",
+        "./packages/guard/*/src",
         "./packages/subagent/*/src",
         "./packages/tasks/*/src",
         "./packages/web/*/src",
+        "./packages/timeout/*/src",
         "./packages/todo/*/src",
         "./packages/hooks/*/src",
         "./packages/session-persistence/*/src",