Hello @Chris_Townsend,
Thanks for contacting support, I’d be happy to assist here. Can you please post a screenshot of your Roon Settings -> Storage Tab? This screen should look like this and I would make sure that you haven’t accidentally added a storage location twice here:
Where exactly are you seeing these duplicates? Are they in your playlist or in Artist/Track browser?
If they are references from old storage locations then you can try using the “Clean Up Library” function although I would be careful when running this command as any watched folder that you have disabled may be impacted by it. This thread and this one describe such cases.
Thanks,
Noris