the side glass is a common problem with cabbies..ive fitted a good few and no matter how much i tried adjusting the window there is always a slight noise..ive seen it a few times where the glass was as close as possible, then the roof dropped the gap was bigger..as if the roof didnt settle in the same position twice.. may be something you might have to just put up with..try adjusting the glass though, chances are you will get it a bit better at least