I assume the changes to harbor have altered things. I no longer see any of my profiles for either harbor. Should I add new profiles, or will my old ones return with a plugin update?

I would need to understand exactly what happened.

Did they change the prefab name of the harbors? You can check the current name with MonumentFinder, and check the old name in your profile data files. If they changed the name, you can change the name in the data files to mitigate this issue for yourself. If you can tell me the old and new name, I can update the plugin to handle this.

No change here. It's still harbor_1 and harbor_2