When Upgrading Patch Management from 6.1 to 6.2 you may want to upgrade your NS server and then upgrade your Software Update Agents on your client machines at a later time.
This will work as long as you continue to import 6.1 PMImport updates instead 6.2 PMImport updates.
In order to do this, change your Patch Management configuration under Configuration -> Solution Settings ->Software Management ->Patch Management ->Server Settings ->Import Microsoft Software Management Resource.
Make note of the current URL and save it somewhere. Then put the old 6.1 URL in
When you upgrade your clients, go ahead and change this again, putting in the 6.2 PMimport URL and you'll be set to go!