I think I’ve found the cause, but I’m unable to resolve the problem, I can make a workaround only. Sync conflicts in .obsidian folder are caused by Obsidian itself, the conflicts in the vault are caused by the Folder notes plugin. The primary cause is the “aggressive” way how they react on missing files.
When the synchronization app receives a replicated file from another device, it aims to replace the older version of the file. It seems that the following happens:
- The sync app deletes the old file
- Obsidian/Folder notes detects the deletion, and immediately replaces the missing file.
- The sync app tries to rename the replicated file, but a newer file has mysteriously appeared there, so it fails with a sync conflict.
If its a configuration file, Obsidian saves the current config.
If its a folder or a note, the Folder notes plugin creates an empty note.
I can turn off the automatic creation of folder notes in the Folder note plugin. I have verified that this resolves the problem completely, inside the vault.
But I can’t turn off the automatic replacement of the configuration files in Obsidian. It would suffice if Obsidian wouldn’t replace the missing file immediately, but waited a few seconds.