Hey, thanks for the report.
This is a known issue, and the team is working on a fix. A similar bug was discussed here: [Bug] Settings: Project Rules show duplicate entries in v2.0
Good news, the rules work correctly. The problem is only in the UI display. The duplicates in the UI don’t affect context or how rules are applied.
Try reloading the window (Ctrl+Shift+P → Developer: Reload Window). If the duplicates are still there, that’s OK until the team ships a fix.