When you link multiple folders in multiple libraries, duplicates will appear on your home screen. To fix this, you must change the visibility settings in your libraries that are already part of your main library.

Here’s an example:
Movies [Library] Visibility: Include in home screen and global search
- Movies [Folder]
- Movie Series [Folder]
- Disney Movies [Folder]
Movie Series [Library] Visibility: Exclude from home screen
- Movie Series [Folder]
Disney Movies [Library] Visibility: Exclude from home screen
- Disney Movies [Folder]
To do this, on the Library that you want to exclude on the left side panel, click the 3 dots (Action), then click Manage Library, Edit… and then under Advanced, look for Visibility settings and change it to “Exclude from home screen”.
Check your home screen and all the duplicates from your Continue Watching should be gone.
You can watch this video tutorial on how to do this