There is no such thing a "perfect fit" every person fits a bike a bit differently. It may be that the new postion is a bit strange for you. I have a tendecy to ride frames that are a bit short in the top tube and use a slightly longer stem to compensate. But I also ride with my saddle further back than "normal". I can set a bike up the way it is "supposed" to be set up and not like it, until I tweak it to where I want it. Read
Peter White's article on how to fit a bicycle. Lot of good information in there.
Aaron