Orthohex

Came here to report the same issue. From what I can tell, this should have been expected, since the patch overwrites the .exe FMM applies mods to. Tried to restart FMM to redirect it to post-patch BF2, then reinstalled and reapplied mods before launching from FMM. Didn't work; got the same result as you and I both did. FMM dialog reads 'applying mods,' minimizes, logs into Origin, and then nothing. Launching vanilla from Origin works fine. Not entirely sure if EA/DICE snuck some anti-mod stuff into 1.1, but I'm disappointed. Mods were what made the game enjoyable.