Sorry that this is not a direct answer to your problem... But it probably is not a good idea to share profile folder between Windows and Linux FF. I found this out the hard way a few months back - Something got tangled up horribly and FF grinded to a halt. I ended up having to revert back to a backup that I had.
Since then, I keep both profiles separate, and use Google browser sync to keep stuff like bookmarks and opened tabs in sync.