What about doing the ABS pump purge routine as you have vag-com? I havent tried it but have details on how to do it, dont know if it would help but might be worth a shot since its free:
(quoted verbatim from ross-tech)================================================
This procedure details how to bleed the ABS pump when replacing brake fluid. This procedure is NOT necessary unless your ABS pump has gone completely dry. For normal brake work including fluid replacement, hose replacement, pad replacement, etc. this procedure is NOT necessary. Also, this procedure does not take the place of good ol' fashioned brake bleeding with one person operating the pedal while the other person opens the bleeder valves one by one and collects the discharged fluid.
There are certain test conditions that must be met before doing this procedure:
Vehicle must on a lift or safe jack stands with no wheels touching the ground
Ignition should be in the "On" position
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Procedure for Bleeding the ABS Brake Pump on VW Golf, GTI, Jetta, and Audi TT:
[Select]
[03 - ABS Brakes]
[Basic Settings - 04]
Group 001
[Go!]
This will trigger the ABS pump to turn on for about 10 seconds. You should hear the fairly loud pump clicking during this time.
Click the [Done, Go Back] button and you're all set.
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I was thinking maybe you have a line lock or something wrong from the pump to one wheel but i suppose now i think about it the fault did stay with the input pin for that sensor on the controller so it does look like its faulty. Just pull one off a scrapper as long as the part number is the same i.e. teeves 04 - 1H0 907 379 D