Try a smaller number of files,
Used to be if you did a very large operations, clem would freeze, sometimes the entire computer, worse on machines without lots of ram & cores
The new behavior is crash, I opened 2 playlists of 15k files accidentally, as I wasn't sure if it worked & clicked again, crash
I moved to outside metadata editing tools after having files with hincky metadata clementine couldn't change enough to fix file names or other stuff
EasyTag on linux,
I never tried the organize function on clem,