Ultra 2 Shadow Problem

After years of having Ultra 2 with minimal issues, I suddenly have a shadow problem. My shadows will no longer line up, some are upside down and won't reverse, some on the wrong side and backwards and none of the vertical, horizontal, or alignment settings solve the problem. I have used the shadows numerous times with none of these problems. The left floor setting for example will place the shadow way above the charector with no way to bring it into place.
I have updated my video card driver software, and there are no updates needed for Ultra 2 available.
The problem is not consistent either, sometimes everything is fine, it seems to happen when using only certain virtual sets, but works fine on other sets.
Has anyone else had this problem or know the fix?
Thanks in advance.