Hi Toni,
This glitch is still present in 2.0.1 although not as bad as the previous 2.0 release version.
Under any configuration when I enable the Direct3D filter (doesn't matter if it's Point of Bilinear) I get a graphical glitch at the bottom of the screen.
Below is a pic of the bootup screen so you can see it clearly:
The glitch remains on the workbench screen or anything I run after.
Going back to version 1.61 fixes the problem. Also not using the Direct3D filter makes the problem go away.
My info:
Windows XP / Service Pack 3
Nvidia 9800GT
Happy Holidays and thanks for the hard work you do on this great program!