Hey TheOne48, I would like to disagree with you that it might be dependent on IE settings (because the problem was independent of operating system), but since it seems to be fixed now, lets not worry too much about it.
I turned on X10powered.com (using Firefox) for both WindowsXP and Fedora Linux, then resized my window. The login box did not disappear (except when it scrolled outside the window), and the menus did not scramble themselves. It appears that the issue is resolved.
GREAT looking theme!
Well done, Jake. Thanking everyone for their perserverance.