The problem is that with the skeleton you need to set it to a TPose as well on an initial frame. I usually nest this in the -10 range. Then you can characterize the motion capture and then apply it to the characterized control rig. Btw I tested this on this capture and a HIK example on my end before posting back. I generally do the same thing but with a custom rig and have the controllers driven.
Last edited by Chavfister; 10-02-2013 at 03:06 PM.