I am not familiar with modern Naval gunfire control systems. The question would be was the fire control radars locked onto targets. If they were, the directors should be swiveling in automatic mode. One also has to know what was going on in Flag plot at the time. The target designation systems are probably located there. I can only wonder how many targets a modern surface vessel can simultaneously track and how the targets are distributed among the various ships.
I seriously doubt the warships would use the 5” guns on fiberglass speedboats. Besides the CIWs, they also have 25mm guns specifically to deal with these types of threats.