DISGAEA for sure.
Persona.
Blazblu
DMC
ICO & Shadow of the Colossus (if you don't think they're anime games, think of the story and setting(s) of either game and compare them to other anime inspired games)
Tales of (of course)
Star Ocean
Almost all the FF's
Chrono Trigger
Valkyria Chronicles
Advance Wars (All of them)
Pokemon (Red, Blue, Gold, Silver, Soul Silver, Heart Gold, Diamond, Black & White) (Side note: I will buy a 3DS specifically to get a new 3D Pokemon game).
Lastly, even though it had no real "anime" characters in it... it took very heavy influence of the anime "mecha" genre and meshed it perfectly with western mechs to create one of the most fun team based mech games alive (what I mean by meshed is that the half the guns look like they came from animes while the other half came from western mech games. I mean COME ON, did anyone think the "Spiker" was a western mech idea?).
Chromehounds