The Archaeologist sends the seahorse to guide you through the temple and he's often shown as a stream of lights... but yea, it's easily missed and the effects often don't let you realize that.
Then the seahorse seems to mysteriously disappear after the mermaid turns bad.
and YES! I'm a fan of Atlantis! and YES! the park should clean up the effects. But I have to give it more props because it seems like this is the only ride between Busch/Seaworld that has a storyline-- and a good one too.
Oh well, we will see what happens!