My driver side door has the same problem. Everytime I open it rubs against the top a little bit. right now I have about 1" tear. I have another 1.5 years on the warrenty so im just going to wait until I leave for vacation for a long trip and schedule it then. The rest of the top looks great just that drivers side.
I have read some horror stories about getting the top replaced so im very hesitate anyways about taking it in. Hopefully my Nissan dealership here in Atlanta has done this a few times