Hmmm...I'll have to check it out again. Another thing I would experiment with if possible is trying to use the original ending for the music of the scene where Russell destroys the ship. It sounds more appropriate with the usage of Russell's theme and the more ominous ending of the cue.
I'll get back to you, though. This is definitely a movie that a lot of people bag on, but it's fun, and it shouldn't be too hard to fix up.