I just built a new system and completed today.  I'm using the same stick as on my old system.  I notice that I physically have to move the stick more in every direction is order to get the same effect I did on my old system.  For instance, where I had to move my stick a little more than half way to get the rate of roll I wanted, now I have to move the stock almost all the way to the left of right.  Same with pitch as well..
I tried using the same stick scaling settings I used before to no avail.  The stall limiter is off, in case anyone is thinking that may be it (who the hell uses it???)