Basically, imagine taking the trans mount when it's off the car and stretching it all the way to one side. That's how mine was after some miles. Pre loaded towards the firewall which caused some weird noises and a thudding sound when I free revved. VW built in an alignment circle (which no one online has mentioned). They're smart to do that. Basically the mount should be in the middle of itself, not stretched or askew, and then the trans should be aligned with that circle exactly in the middle both left to right and up to down.
I'd be willing to bet they even have a tool that is like a rod that sirs down in that hole and shows the precise alignment as it sticks out.