Wow, maybe something is wrong with my setup. In Cursor 3, I am clicking "New Agent" at the top left. My root repository is correctly listed on top of the composer, and I clicked the icon to the right of it and selected 'Worktree'. Then, I instruct the model to run `pwd` and tell me it's git status. It's always just on `main` in my root repository. I dug through the settings and couldn't find anything, and after finding this comment[0] on their forums gave up. Would you mind sharing a bit more about your setup/how it works?
[0] https://forum.cursor.com/t/working-with-worktrees-in-cursor/...