notes.sqlite: "Unable to establish a database connection with file" after first launch

[tesfabpel]

I reported the issue here but it seems only the flatpak version is affected...
Still present with version 23.11.2 - GitHub - build 1063.

To recap:

Using the flatpak version (QOwnNotes - version 23.11.1 - GitHub - build 1062), trying to open the app, it greets me with the message: "Unable to establish a database connection with file '/run/user/1000/doc/ff2a565b/Notes/notes.sqlite'. Are the folder and the file writeable?"
Entering the flatpak environment with flatpak enter org.qownnotes.QOwnNotes bash, and issuing the command ls -al /run/user/1000/doc/ff2a565b/Notes/ it reports:
-rw-r--r-- 1 tesx tesx 0 Nov 11 09:41 notes.sqlite
So the file is indeed writable.
[...]
So I tried to delete the file and run the app again and no message were shown this time and the file was recreated (but still empty).
Closing the app, and restarting it, the message reappeared...

With the app installed from ArchLinux's AUR, it does create the new file correctly (and it doesn't complain afterwards)...