I've read Dr. Geddes white paper on the subject - while interesting, it's cost prohibitive, for me. I also don't have room for multiple subs, and floating them in the air, as Dr. Geddes suggests, just won't fly. If anything, I might try 2 mono subs at opposing ends of the room, per the Harmon white paper out there, but that won't be any time soon.
Yes, I believe it is primarily harmonic distortion that I can hear, possibly non harmonic, as well. There's plenty of room on the gain knob, but it basically sounds like 2 speakers playing the same signal out of phase, where the cancellation isn't perfect.
I think we should leave my room out of it, for now, since I haven't come up with any solutions, so mca can get more help. I appreciate your asking, though, Duke.