Thanks a lot for the advice. I tried playing around with the speaker positioning with some success, I think the reflections of one of the speakers in the corner were causing trouble. I panned one tune from speaker to speaker to test out variations, and found the one in the corner was the most offensive one. Also, I've been breaking them in further, which may have helped. I tried draping a blanket on the wall beside the speaker, but I think I will hold off on any room treatments until I move in two months, and have my audiophile friend to help me try things out without laughing at me.
I generally like the quickness, and the bass of the ML's as compared to others in the price range, so the next step after I move and set them up properly will be to get a soundcard with good DACs, and an equalizer. I'm thinking the equalizer is a good idea, because it seems some music was not made to be played neutrally.