I believe this is already what happens with Volkswagen - recently I had my brakes replaced by an independent mechanic, and they had to charge me $50ish for some software lock as part of the process.
Disabling and then reenabling the EPB is part of doing a rear brake job not some optional extra, very cheeky (IMHO) to charge extra for that. It's also possible to do it without a VAGCOM tool, but requires removing the EPB motor so the piston can be pushed back and then manually turning the motor to the disengaged position so that it can be refitted.
