Just want to give a quick update. I took the car in last Wednesday and Jack from service was very courteous, he listened to my concerned and marked all the areas of concern with tapes, he said the car will stay for a couple of days but he gave me a 2016 Model S 85D loaner (it's quick but I still prefer my SR+). Again he said there is nothing they can do about the paint chips, which I decided to just accept it. Last Friday I picked it up and all the major issues have been fixed, the front bumper was adjusted, rear passenger door now align nicely, two rear passenger glass now match (more or less). There is still an uneven gap between the driver side rear quarter panel and the bumper, they took the bumper off and made an attempt to adjust it but there is still a visible gap, again not a huge issue I've decided to let it go. Overall I'm satisfied with how it turned out, my service adviser Jack has been more than helpful in resolving this issue.