Since the last update, maybe the last 2 when I am in window mode and i switch out of the application and go type something somewhere else like in Safari or iChat my typing causes the VO window to do all sorts of things, it isn't letting go of the input.

This has not always been the case because I do most of my mission debugging in this fashion and it has only started to do this recently

Had the same problem, Momerath put out an update which fixed it for me I think