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I have to go with other again this year.
Demon's Souls might deserve it, however like most I didn't get into the series until Dark Souls and as of yet have still not played the first one. (I have the remake sitting in my backlog). So I can't say whether it deserves it as I find the vertical interconnectedness of Dark Souls map its biggest strength.
Games I enjoyed most in 2009:
Uncharted 2! It improved on everything from the first game and the tech advancements were incredible as well. Great puzzles, great set design, great replayability, still my favorite of the series. The tech behind train level is awesome as well as fighting inside a collapsing building. 
Prince of Persia meets Tombraider with tons of charm.
Dragon Age: Origins I played through 4 times to get all the different interactions between the characters and different paths through the game. The banter between the characters was awesome. I had hoped BG3 would replicate that but so far DA: Origins stands far above BG3 for me.
Great game, deserves a remake. The sequel wasn't as good.
Yet my goty for 2009 is my favorite Ratchet and Clank game, A Crack in Time
The first time I felt I was actually playing a PIXAR movie, stunning looking game with all the great mechanics of previous R&C games plus time mechanic with extra Braid style time puzzles to unlock at the end. I wish there were more.
Crack in time also borrowed from Super Mario Galaxy with the smaller planets to explore.
It was/is a favorite in our house, all 4 of us have completed the game, my wife and I multiple times. Great end boss as well!
Only downside is, it's on the ps3 and my ps3 controllers are all effed up. DS4 works with ps3 but only wired, need an extension cable to play this again.
