Oh God yes.
I think you have to keep in mind that often music in computer games is background music that plays to the setting more than anything else, as you have to explore a certain area. This is particularly the case in Final Fantasy or Zelda games, for instance. Whereas the music used in FMVs or certain key scenes with dialogue, I suppose is often more comparable to film soundtracks as they rely on the events, the dialogue and the setting.
I think I prefer computer game music because for a start there's room for more variation due to the length of computer games versus the length of films. The Chrono Cross soundtrack, for instance, has a greater variation in tempo, instruments used and general feel to the music than, say, the Indiana Jones & Last Crusade. Not only as films often involve a motif or something that links various tracks and scenes together.
Overall, I prefer video game music but from composers like John Williams, Danny Elfman, Alan Silvestri and Yann Tiersen there's fantastic music, just like there is from composers like Nobuo Uematsu and Yasunori Mitsuda.