Currently there is not a published guide/document regarding the migration of a Primary Application Server. Generally speaking, we recommend installing a new server from scratch, as the majority of information contained in the server is replicated from other sources. The exceptions would be scenarios with a notable number of EminentWare Computer Groups, Credential Rings, or User Profiles.
Patch Manager and WSUS can reside on the same server; however, there are special considerations that you need to be aware of. The Deployment Guide discusses these considerations.
Message was edited by: Lawrence Garvin (6/15/2012) -- Added hyperlink for Deployment Guide.