After updating to 3.6 my Organize Bookmarks view does not show my bookmarks. I had to use Restore Bookmarks to get the operational list back, but now I can't export because they don't show in the Organize Bookmarks view.
The update scrubbed my bookmarks list. I was able to Restore a backup, but the Organize Bookmarks view does not display them, even though they now appear on my taskbar listing. My Bookmarks toolbar has the correct bookmarks, there is nothing under Bookmarks Menu, and a very few under Unsorted Bookmarks. Obviously I cannot Export HTML to externally backup my list. I also cannot Bookmark this Page, because I don't get the real list.
Modified
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This can be a problem with the file places.sqlite in the Firefox Profile Folder
See http://kb.mozillazine.org/Locked_or_damaged_places.sqlite