I was looking thru my old stuff recently and saw this wasn't really color balanced right, so I had some time this weekend to play around with it. It's still probably not perfect, but much better than it was before. Old one is on top.
Been trying the improved photomerge in Photoshop CS4. WAY better than what was in CS3. All these buildings line up now, and the blending seems better, plus there's more options in how it projects the stitch.