File System Scan / Comparison Error

Which dokany version do you have installed. If not latest, please uninstall it and update it and Switch settings back to dokany and check if this has an impact.

These are the virtual file systems that are used by Cryptomator to provide the virtual drives.
https://docs.cryptomator.org/en/latest/security/architecture/

Advantage of using dokany:

The error you are posting looks to me like there’s an issue either with the filesystem or with the hardware where the vault is located.