The interior lip of the upper window frame rubber has not been tucked in properly. I'm assuming it was an assembly error at the factory which hasn't been picked up at PDI. I've tucked it back over, but there are 2 creases in the rubber from the 2 ends that weren't tucked which probably won't disappear fully and the rubber length isn't fitting as snugly as expected.
There's a small squarish patch of metal bodywork towards the front of the door frame that is unpainted, but would have been covered by the rubber if it had been properly seated. I'm presuming this is a holding point for the door to be painted on a frame before being hung on the car, but gave asked the question of the supplying dealership.
See pics before and after tucking in.
Not sure if this us a normal warranty claim at a local dealership to fix if the 2 kinks don't straighten out, or perhaps VW alleviate themselves of responsibility because it wasn't picked up at PDI.
After

Before
