if you just don't run the connector, then nothing will change your user accounts. No need to remove it, just don't run it again.
If you want to connect your users to a new AD, then you need to modify the bindings on them to reflect the new GUID etc, and also create a new connector to manage the new AD. That's something you can script, or use something like my LinkUser tool (search here for info).
It would not be a process that McAfee would support without prof services though.