Just an idea, mind you...
Since the older probe works and the newer one does not, that leads me to believe that the problem lies in the probe and not the CodeWarrior installation. That and the fact that the problem moves with the probe and not the board. I would suggest the following:
1) Go to the P&E Microsystems site (www.pemicro.com) and download the latest drivers. Then update the drivers on the system.
2) There might actually be something wrong with the probe. If 1) doesn't work, I would recommend contacting P&E Microsystems support as to this possibility. They'll probably ask you to update the drivers first, so you might as well get that out of the way before you do.
---Tom