1st, remember a ballbar will show stuff that you may not see in a cut. Now it depends on what is actually out. If it's squareness, than can be easy or hard to adjust. Backlash, usually pretty easy; scale missmatch, servo tunning; cyclic error, mechanical adjustment. .001 on what size diameter? You left a lot open. Maybe post your charts ? Normally, at .001 in our shop on the generic machines, I will try simple adjustments to get it better. If the simple stuff won't get it, we let them run the way they are. If they become worse the next time, then we dive in to it.