Interesting.... makes me thing 2 things...
I used to have an way older polk audio setup, and while the mains were OK, not great by any means there was no really great matching center and I was always struggling to get a good front sound stage cohesion.... It just never sounded right panning from side to side as it was never really voiced the same as the mains.
The other thing that comes to mind is that I was and am not very happy with what MCACC of the pioneer of that generation is not all that great. Its not a very spacial correction system at providing good depth or width of sound stage. I believe as a few years have gone by they have done a better job with their room correction from what people are saying, I just have no first hand experience with the newer models.
Have you tried to turn off EQ and set it more in a manual methodology...? I know its hard to do by ear without measuring equipment such as REW, but it may be worth a shot.... what you can do I copy the correction valuse and apply them manually and see if some minor adjustments to EQ on the CC may improve things for you, that is what I had ended up doing with my setup, until I get a new Preamp that has Audyssey or at least a more capable room correction....
Hope that makes sense...