As I mentioned before, it was probably off side to side from the factory. Since you never measured before the level, you just never realized itUPDATE:
Took back to the shop and had them pull the passenger side strut to make sure the spring was seated correctly. They told me that it looked good so I had to resort to moving down one clip on that side. It bugs the hell out of me, but that got me to within a 1/8" of driver side. I guess that is where I am at for now.