Wouldn't think you could do it with VAG Com, if thats the software you got. Whats up got different clock have you?
if you still have your old clocks just swap the eeprom, just done this on mine as the new clocks was reading 50k to low.
its not a bad job if you can solder its just a 4 pin dil chip, what milage do you have? as I have a number of clocks here, if you was closer I would do it for you mate.
I will have a look, I know I have a set with 95k on but I will check the others