OP, call corporate customer service and put in a complaint, they will contact the dealer and usually work out a compromise.
I just purchased a CPO Jetta in November, and at the time of purchase I noticed the plastic belly pan under the engine was cracked. the salesman said it was nothing to worry about and he had the techs literally remove the broken part.
6 months later i take the car to another dealer for service and they said the oil pan has a huge dent in it and is rusting, and quote me $400 to replace it. the dealer that sold me the car said they didnt see that it was necessary to fix since it wasnt leaking. i called corporate and they spoke to both dealers but couldnt work anything out so VWoA is sending me a voucher for the repair value.
bottom line: not every dealer lives up to the CPO standards, but VWoA is pretty good at making things right. you're buying a used car, and its still your responsibility to properly inspect it and make an appropriate decision on whether or not you can live with whatever issues it may have.
oh, and the dealer told me i needed new rear brakes, when supposedly they were at 50% just 6 months and 6000 miles ago.