well i didn't necessarily mean utilizing only L and R channels...however you can try it and see. I just meant opposite one another. I still think the organ would be able to function more as the lead instrument more near the center, but keeping the guitar off to the side of the group. Keeping the horn player analogy i said earlier in mind, try and think of a big band. Rhythm section off to the side of all the horn players. Now, the organ player is the center of attention, but you need to also have a little variety and spice from the horns every once and awhile. The saxes in a band (when it's someone elses turn to shine) usually play syncopated riffs and pops here and there. This is what the guitar player is doing. Maybe also try listening to the snare when doing this and blend the two together since they are both playing syncopated ideas....yeah i just took a listen to it again...definitely do that, i think it will sound awesome. And speaking of the snare, it'd be nice if he played with some brushes maybe (although, I know you probably already have this recorded and aren't going to do it again).
Okay, hope what I suggested made sense. Once again, I have a hard time conveying what my brain is thinking. As far as the audio cutting out...it did the first time I played it. However, I just figured it was loading the audio slower than it was playing (you know how it is when you're streaming something). The second and third time played without a hitch. Good luck man! Let us know when you finish it all.