All you should need to do is first make sure it is closed, with ignition on, pull the sunroof button back and hold thebutton, the system should go all the way back then forward and settle to the aligned closed position. if you have it correct it should open and close with the conveinence system with the key. if it fails to set up, try disconection the battery again and leave for 10 minutes, and reset sunroof and windows again. just keep you finger on the button.