I have a similar problem.
I had been using a Cryptomator vault for a few months. Within the vault, I had 3 or 4 directories. One particular directory had a few dozen .txt files. None of the files were particularly large.
Everything was going fine until one day all of the text files within that directory were gone. Assuming they were gone forever, and further assuming that I had mistakenly deleted them all, I continued using the vault.
A weird behavior was discovered with that particular folder. It shows no files. But If I copy a file into that folder it disappears. If I try to copy a file into that apparently-empty folder with the same file name as should have been in there, it throws an error (The destination already has a file named xx.txt).
I renamed the directory to (directory_old, or something like that) and that didn’t change the behavior.
I made a small text file… deleteme.txt and copied it in. DIsappeared
I copied that same text file in again and I get the error. (The destination already has a file named “testfile.txt”)
Cryptomator Version 1.3.4
Behavior is identical on two different machines. Windows 7 and Windows 10 Pro
The files are on a local network drive.
The files are not synced to Dropbox or any similar cloud storage service.
Everything in the vault except that directory seems to work as expected.
Anyone have an idea how to I might recover my text files, repair the folder within my vault, and prevent this issue in the future?