Hey, thanks for the report. This is a known issue in worktree mode. After the first Apply, the button disappears in the agent’s later replies.
Related threads:
- When Apply changes in Worktree you canot apply again
- Multi agent mode loose worktree and Apply / Undo Apply
One possible workaround: sometimes, if you ask the agent to do something small, the buttons come back. Let me know if that helps, or if you notice any other patterns.