My wifes 2.0tdi Touran slips the clutch in exactly the same way as described above even with a very smooth state of tune. I have returned the software to stock and its just the same, only does this when the weather is cold though and max torque is acheived due to the ambient temp. In the summer its no bother at all, foot to floor and it just pulls as if there is nothing wrong. VW changed the flywheel and clutch (reported a judder and they said its common on the 2.0tdi so I didnt argue) and all is now cured even when remapping a little more aggressively. I have also had a couple of 1.9 105bhp Golfs and an Octavia show up flywheel judder once they have been chipped but again the parts were replaced under warranty.
I think its just luck of the draw with the car really. I have done 100k in my own 2 previous diesels with some heavy remapping and lots of traffic light gps but both were still on their original clutches when traded in.
Your own driving style will be the biggest factor in clutch issues too! The modern throttle is a potentiometer with more than 2 positions