I've had to import parts to an assembly and even though they had to same origin (0,0,0) when imported they didn't fall in the same location. But when verified they both read (0,0,0) The origins of the parts where about 2mm away from each other, throwing the nominals off on the one part of the assembly. So I had to add an axis system to them, and Axis to Axis them in GSD to locate them to the same origin. The CMM will take the origin of the part wich it currently working on, so it looks like a manufacturing defect. Start an assembly and import some parts with the same origin (0,0,0) add and axis system to them and see if they perfectly match up. You should know that a 1mm difference when located 2 feey apart could cost a lot of money.