if you push the window in as it is going up, does it seal properly? This is the "arc", I mentioned. If the glass is too high, even with this, then, you can lower the upper stop to lower the glass. When putting on new weatherstripping (new/used) sometimes the glass has to be adjusted. Same is true for hinge work and if door was replaced.
Oh, it is best to not try adjusting the window on car's battery power alone, over multiple tries. The window end up not going up as far and when you start the car and run the window, it may go higher.
[This message has been edited by jaskispyder (edited 12-03-2015).]