I use both windows and linux alot and have a set of bookmarks on each system
Does anyone have bookmarks synching tips for this situation?
Is this a dual boot machine? If so, you could set up a symlink under linux linking your windows bookmark file to your linux one (make sure the actual file is the windows file or you'll have no bookmarks under windows.
ln -s /path/to/windows/bookmark/file /home/<your-user>/.mozilla/<user profile>/bookmarks.html
If they're seperate machines, perhaps you could email the bookmarks file back and forth and import them manually.