Edelbrock Performer RPM (7577) and 360 Magnum CI heads

Coolant ports are NOT an issue, normal as you saw comparing the kegger. It makes the heads able to go on either side of the engine and the intake blocks the rear ports that are not needed.

Can you post a picture showing all four ports at one time. Last picture looks like a problem but only if the ports not shown ARE lined up nicely while those shown are not.