I don't know if you were fitted properly or not, but make sure that the seat is not so high that you have to lean forward too much to reach properly on positions 3 to 6. I had this problem and the fact it was a mens saddle that did not support my sit bones. Boy, this last week when I got the new saddle (Terry Tri gel butterfly) did I finally sit on those sitbones, much more durable then that of the soft tissue region.
R*E*L*I*E*F !
Also the change of the height was also a factor. That is why I mention this. Between the wrong height and improper saddle had me thinking that I may never achieve my dreams of riding long distance of more then an hour ride, so no charity races for me I had thought. Now there is hope! Yay!!! I am so delighted!