Sounds like the ACU can only see the MSA through one path, I would disconnect each one in turn and see if it can see it both ways.
If you've only got one host on the SAN at the moment can you also check that Selctive Storage Presentation is on. If it's off do not turn it on with the system live, it's likely it will disconnect the host.
show tech support on the MSA will show all the WWPNs and you can check both of the ones for the new server are listed.