The more I watch the Dooku/Obi-Wan clip, the more I like it. I think TM is right when he says it'll all come together in the complete scene. Good comparison to the Luke/Obi-Wan talk in ANH where the Force Theme starts up. That's what made me think of using the Qui-Gon Theme, since he's who they're talking about. But no matter, I'm not even sure if that will remain in Episode I for there to be a connection made to it.

I'll comment on the Nemoidian voices when I get a chance to download them, but it's very encouraging that you have these up for all to see!

As for the scene of Obi-Wan surveying the Clonetroopers, I would use the most alternate version of the Imperial March that you can find (nothing too different, but a littel variety is in order as the first full blown version should be saved for the end of the film). The "KOTOR March" that Weezer mentioned is a great piece of music, but for something as iconic as our first glimpse of the Stormtroopers, I think it calls for the iconic theme of the Imperial March.

And to answer your question Weezer, TM is giving the Clonetroopers intercom clicks when they speak (unless that's changed without my knowledge).