I am seeing the same thing, but it is system wide. All
menus/tooltips/gksu prompts show up, but they are behind all windows.
That appears as if nothing happened. Jason, could you try to reduce the
size of your firefox window and try opening bookmarks? Do you see them
behind the window?

Here is a screenshot of what I have been seeing...

/Mahesh

** Attachment added: "App menus/Gnome menus/context menus/tootips behind all 
windows"
   http://launchpadlibrarian.net/13538296/stuff-behind-windows.png

-- 
Firefox ignores mouse input
https://bugs.launchpad.net/bugs/218684
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