I just finished rearranging this soundtrack to make it more chronological, got the fanfare as the opening track, and moved that snippet of the Clonetrooper them earlier in the tracklisting as a standalone. It's short, but at least it tells the musical story in the right place.
I noticed there was a LOT of music in "The Arena" track that wasn't in the movie. I'd really love to see the cut that John Williams scored and see how it's different. I don't have any real complaints about the final result musically, but why screw with a Williams soundtrack in the first place?
Maybe MagnoliaFan can restore some of this music in "The Clone War 2.0." You listening MF?