No, the Guest is not completely isolated and what you're seeing is quite normal and expected. The Guest OS see a different CPU and also the MAC Address for the Network Adapter if you choose "I copied it" vs. "I moved it" when prompted.
As far as the situation with the software you're using that's not a VMware issue and is between you and the Artisteer software manufacture. If you can ascertain how the application stores its activation information you might be able to capture it and restore it based on the two different Hosts. As an example with Windows XP running on a Mac on the Boot Camp partition and the Boot Camp partition being run as a Virtual Machine the WPA Database is captured under each environment and swapped back and forth managed by VMware Tools. This is a legitimate workaround because that singular install of the OS is only being run on one physical machine and only one occurrence at a time, either natively or as a VM. To do something similar in your situation may violate the EULA of the product so I'm not going to provide any of the technical details of how to accomplish the task.