This topic answers the question, "Why, when I delete an endpoint from Management Central, it later reappears?"
When connecting to a target system, Management Central requires and uses endpoint objects. Additionally, many Management Central functions appear under systems that are listed under My Connections. Thus, whenever a user creates a system under My Connections, an endpoint object is saved in the database on the central system as well as the client PC.
If you delete the endpoint from Management Central only the entry in the central system database is deleted. You must also delete the system from all clients that have that system listed under My Connections. Otherwise, the next time user, that still has that system listed under My Connections, starts iSeries™ Navigator the endpoint will be automatically added again to Management Central
Therefore, to completely remove an endpoint that is also defined as a My Connection system, all users that have the system defined must remove the My connection system so it will not be automatically added.