Observe: I put xmms in the upper left. I double click the playlist window so it expands. I double click it again so it shrinks, and bam, the window suddenly moves downward! :(
http://www.newbyproductions.net/images/observe1.png
http://www.newbyproductions.net/images/observe2.png
http://www.newbyproductions.net/images/observe3.png
I've fixed it randomly before, but it won't fix now. HELP! :(
Bam. Fixed.
Solution:
Arrange the main window, playlist window, and equalizer (in that order) all shaded. Unshade the equalizer, close it.
Should work fine. :)