After Tri fixes the rift in Zora River, you follow Jabu-Jabu to Zora Cove.
Follow Jabu-Jabu
From the Sea Zora Village, go northeast, then when you're north of the rift, go east and there will be a cutscene. Approach the island with broken rocks on it, and there will be another cutscene.
Go to the east part of the island and go south to get in the water. Hold A to dive down, and go through the underwater door on the east side of the island's south wall.
Go down the ladder.
Swim downward, and swim in front of the glowing corals to make them get brighter. Be sure to swim in front of bubbles to refill your dive meter whenever you can. Use an underwater monster echo or swordfighter form to defeat the Tangler Lv. 2 in the way. If the path is too dark, you can create Tangler Lv. 2 echoes to light the way.
Swim in front of the chest and open it to get 10 pieces of Bubble Kelp.
Keep swimming upward, swim in front of the bubbles to refill the dive meter, and use underwater monster echoes or swordfighter form to fight the Tanglers on the way up. Keep going up to reach the inner part of the cave. There will be a cutscene.
Go to the boulder that Kushara showed you. Bind to it and pull it north. There will be a cutscene.
Go to Jabu-Jabu's Den
To continue, warp to Jabu-Jabu's den, which is just south of the large rift. Go west and enter the den. Go north and there will be a cutscene.
Bind to the dark rocks where the altars are supposed to be, and move them away from the altars. Then bind to the light rock that is southwest of the altar on the left, and move it into the bottom-right corner of the left altar. If you put it in the correct place, it will automatically attach itself to the altar.
Then go south and get in the water, where another piece of the altar fell. Press A to go to the bottom, then bind to that piece of altar and hold B to go to the surface with it. Move it into the left side of the altar on the left. If it's in the correct place, it will automatically attach itself to the altar.
After you remove the rubble from the altars and fully repair them, there will be a cutscene.
Afterward, go north through the door. There will be another cutscene.
Go north into the water. After a cutscene, you have to battle Impostor Jabu-Jabu.