First I launched Recuva, and easily found the files I wished to recover, and It recovered the files just fine, the only issue was that it was a jumbled mess of files, making it unusable.
I did some research, and learned about the restore folder structure option, and I went to recover the files again, and they no longer showed up.
So, how do I recover files, which I have already previously recovered, a second time?
I looked using another file recovery program, and it was able to find the files just fine, but it didn't have the restore folder structure option, I wasn't able to find any other software that did.
~Things I've tried
Reinstalled, deleted, and reinstalled Recuva
Removing Recuva's scanning filters *however, of the 500,000 hidden files, it still chose to hide all of them*
Scanning the entire disk drive
~I'm currently in the process of performing a deep scan