As the environment variables are in the registry I can only think of two ways to do this. Perhaps in a login script, or using autoexnt.bat you can just echo the var to a text file, or a reg export of the env. variables in a specific folder on the computer and then use the preservation features of ghost to preserve that folder or file.
The reg key for the machine is:
HKEY_LOCAL_MACHINE\SYSTEM\CurrentControlSet\Control\Session Manager\Environment
Secondly, if you use local accounts, you can assign the environment variable as a user specific one and then preserve the users profile on the machine.
Either way the var would be preserved and in some form of after script could then be re-applied to the machine.