I fear that it is just mechanical for the ride system and boats because I know for a fact that is being done as well as welding track and repainting, but I hope this time allows for some Effects to be turned back on and some story to come back.
Bring back the news vans, old queue line video and get a few key scenes working and you have the fun story.
Definitely bring the eerie atmospheric music back outside. When this ride first opened it was very impressive and had a story of Atlantis rising, and news vans outside documenting as a fishing charter company was cashing in on letting boats explore the inside. A misty fog from the water and tower's turret bowls filled the air and a voice that echoes "come to me" in ethereal echoes were in the audio loop as well. Near the loading platform the queue video had a fisherman speaking to a reporter saying that those people should not be going in there because its dangers (alllura the siren goddess) and we see him ready to row a boat in after anyone who might be going.
In the first scene it appears the charter company is going on with it, you board and before entering the darkness a door opens and from a screen as if the greek man is standing in there he tells you "wait Hermes must guide you" a sea horse is projected and then disappears into the form of fiber optic lighting above your head. Your boat follows and you are welcomed by nice voices and given the gift of Atlantis via model lit behind scrim. A mermaid statue has a mermaid spirit apparently rise above it using a simple but effective scrim projection/pepper's ghost feel.
You pass another statue of a goddess pouring water and laughing similar to a Tiny Leota. Her face laughing and turns to water and pours out timed with physical jumping water(think jumping fountains at Imagination) boat follows fountains as Hermes the Sea Horse hides behind columns making worried noises and the music increases intensity for suspense.
The city street area surrounds you and water jumps into pottery as Hermes the Sea Horse appears and makes a spitting noise. Then the fountain water bounces onto a surface of a pouring well and a face appears. Allura lets you know that these "friends" are no longer welcome here and the head morphs into a Medusa like Gorgon. Then going towards a dark tunnel strobe lights on a giant Gorgon Statue above slide down towards your boat stopping. (a feel similar to Countdown to Extinction's Finale" and you ascended up a lifthill with large eyes at the end of the tunnel and projected spirals, which could be compared to Maelstrom's lift towards Odin. After doors at the top opened you turned a corner and the weakness of the original ride appeared, the Beetlejuice theme by Danny Elfman, I believe they went for Mischievous but it just did not fit as it is so recognizable as Beetlejuice. Turning a corner to another larger outdoor lift a water fountain jump from some old Pottery clues you that you are controlled by some supernatural force of Allura. Up the lift to the top and fountains jump over you sometimes squirting riders. As you aim for the final descent the large ancient chandelier above you falls and stops as a startle before the 60 foot drop. You make the U turn feeling like Splash Mountain and all large boat rides the intensity is over. A tiny dip soaks the boat to an orchestrated music crescendo and you hear the ethereal laughing of Allura "Leaving so soon? I think not." And you go up the smaller lift back into the building. From the outside people often think this is the lift to the main drop, but when opened no one knew what a water coaster was and it is still well hidden. As you went in, you see signs of shipwreckage that continue from the shamples that you made your U-turn around. Candles lit everywhere flicker as if in a seance and eerie chants. The music picks up in an orchestration and you see the face of Allura projected among broken sails and as the string section gets louder in the music the Coaster portion starts and is perfectly timed to a curving splash down as she cries at your escape.
You exit into an amazingly thmed giftshop with an aquarium that was once below and above you and some awesome Golden horseshoe hermes Merch and one of the most fun Theme Park T-shirts I have ever purchased (in 1998)
It was indeed a great ride that brought Sea World's theming to a new level, left to rot. To tell you how amazing and successful it was, but quickly forgotten after effects and theming were not maintained, other Sea World Parks build "Journey to Atlantis" in name only in declining degrees. San Diego had one show effect that was a rough dolphin idea that was just an elevator lift to a coaster chute the chutes drop into water and Texas got a straight up backwards U turn Coaster drop with no theming connection at all. And the name is all it has been reduced to now.