Garage Door Programming
I had the same problem.
First: Follow instructions to erase all previous programming. Hold buttons 1 and 3 for 20 or so seconds.
Second: Program the Home Link button One holding the hand held unit to the rear of the top console. This should program correctly but not operate the opener.
Third: Once step two is successful, push the Learn button on the opener and press the Home Link button One three times, two seconds per push, one second between pushes.
This worked for me, mine is a 2004 Touareg V8
1. Erase Codes
2. Program with the hand held remote.
3. Program with the Learn button on the rolling code button.
Step two is critical and must be completed correctly before step three.
Send me a message if you have a problem.
Good luck. I am using a 6 year old Overhead Door Phantom Opener.
ron