Hey there, fellas - been out of town for about a day and a half, so I've just come across this thread.
Petey - I've seen a few folks who ran into your problem initially that were able to resolve it by elevating the microphone to a position closer to ear level. I ran my auto-calibration with the mic screwed onto a cheap camera tripod and sitting in the central listening position. That put the mic at (or just a hair above) my ear level. This doesn't eliminate the "large rears" for everyone, but it does work in some cases. As I was telling a co-worker Friday, though, I'll still always run through the test tones manually with a meter and set my crossovers manually. Even if I had something in par with the MC-12's auto-setup/auto-eq monster (four expensive mics and an internal hardware update that costs about $3000), I'd probably still take at least one pass with the SPL meter just out of curiousity.
Everybody else - thanks for the kind words, I really appreciate them. Home theater has been a fun hobby for me, and hanging out here is part of that fun. I'll pass on the few hundred beers - alcohol poisoning would probably hinder my ability to post.