From the "Important Product Information" for Logic Developer - PLC, the minimum supported firmware level of a CPU331 is 4.50 or later. For a CPU311 it's 4.40 or later.
Unsung, did you order a new CPU331 or did you just order the chip to be swapped out?
The reason I ask is that I have done a few chip exchanges and you need to very concious of static, the chips can be a little touchy. Try not to touch the pins at all.