You will need to run a query against the Veeam SQL Database to “break” the connection from VBR to Enterprise Manager.

In order to do so we will need:

update dbo.options

set value = ‘<EnterpriseServerInfo><IsConnected>false</IsConnected><ServerName></ServerName><Url></Url></EnterpriseServerInfo>’ where name = ‘enterpriseserverinfo’

After the above Veeam should not see any more the connection to “ghost”/old Enterprise Manager.