Thanks Steven, previously, MusicBee used to leave the non-music files in the old folder. With the latest beta, it drags all the non-music files into the new folder in my MusicBee Library. I liked the older functionality because when I was done tagging and reorganizing, I just deleted the old folder and any leftover non-music files. Now I have to manually go into the new folder, select all the non music files, and manually delete them. Does that make sense?
Another way to put it would be to simply have MusicBee "only reorganize music files / delete old folder (even if files remain) when reorganization completes"...