Originally Posted by thrilhou
thanks for all the sugestions, etc. To be more specific, I used to ride the stock set up on my bike, which was 170mm cranks 48x16 and never had the slightest problem. I then up-graded my cranks and wheelset: 165mm cranks 49x17, which technically should be a little easier going, but then the pain started, I did adjust the saddle hight which helped. Perhaps I'll just drop the gear ratio...
Could be your new cranks have a different Q-Factor and you may need to adjust your cleat accordingly (if you use clipless pedals).