Sync will not delete folder containing git repository

I was using `sml-sync` on a project with multiple Git repositories. I deleted a folder containing one such repository and synced up. Now however I see this


And it persists no matter how many times I press `[u]`. I don't know what the best way to handle this is, I appreciate that deleting a Git repository is potentially dangerous, but perhaps there would be a better way of communicating to the user why the remote folder isn't getting deleted?