Since not all of us could be around for the IRC chat when the awards were announced by Kesha, I am reposting them here.
Best of Show - Project AM2R with 20 points
Runner up - Megaman Battle Network Chrono X with 19 points

Category Winners
Mario - Psycho Waluigi
Zelda - The Legend of Zelda: Threads of Despair
Metroid - Project AM2R
Earthbound - Earthbound 3
Miscellaneous - Mega Man Battle Network Chrono X

And on that note, NCFC 2011 is officially over. It's been another great year, with many new games and faces, and the addition of a livestream channel which certainly added to the event!