When I play Movies in Windows Mode, the Window has the right size but the Movie is somehow moved upwards inside the window, resulting in its first lines cut off and a black border to appear below it.
Does not happen in Full Screen.
Any hints?

I get this as well, there is a black border on the bottom and right sides, pushing the picture out of the window somewhat.

I've got exactly the same problem, I tried everything and it's still there. Well, okay, except from VMR-9, that works, but is brighter than the other overlay modes, thus doesn't quite look good.