I believe the manual says to align the vertical wing vent assembly and then tighten it down....but I could be wrong.
Anyway, once you get the regulator in "roll up the regulator to little over half way. Then hold the window glass almost vertical. As you slide it down in the door engage the window sash, (bottom of the window) with the roller on the end of the regulator. The glass should silde in at an angle and while doing it you push it in to the proper position. Once its in position roll up the window.
Did you change the window channel? If so be sure the end of it is sticking down into the little clip on the window channel guide that bolts to the edge of the door on the latch side. If its out of the window channel it could be giving you a problem.
Let us know how you come out.
There is a link in the tech tips, or somewhere else, that is a link to Keith Hardy's on line shop manuals. It may provide the "how to". Take a few minutes and check it out.
