I would do that if I could easily tell which files were being used and which were extraneous. I need some way to separate the good from the bad.
Can you share how you did this?
I was able to get my folders back by deactivating and uninstalling the current version and then installing a beta version the author posted to resolve a related problem. It worked for me, but I had a duplicate dev server to try it on along with a complete backup in case something went wrong. Luckily it didn’t. Hopefully, the author will post an official update. Here is a link to the forum conversation with the beta version of the plugin.
https://wordpress.org/support/topic/unable-to-rename-or-delete-problem-folders?replies=3