Guppy: Take the warp through the Intelligence section at the entrance. If you haven't beaten the mid-boss, you'll have to do so now. It can only be damaged with magical attacks (or the Guardian crystals you can buy at the Castle in the Sky, the Omnicrystals you can find, etc.); physical attacks have no effect.
After that, you'll warp to the shrine's "mid-point". Continue upward to reach another courtyard. Just to the right of the entrance is a building in which there are books you can read. They give you clues to help you solve the puzzles in this area.
In the upper-right area of the courtyard is a stairway leading down to a room filled with water and many intersections. Generally, head left and down, until you arrive at a large hole with flashing tiles around it. In the library, there was a book that said, "A clockwise dance will bring a downpour to the dark abyss." The "dark abyss" refers to this hole surrounded by flashing tiles, and the "clockwise dance" refers to the maneuvers you must perform in order to solve the puzzle.
Once you trigger the "downpour," return to the courtyard above, and you'll find that the north pool has been drained. Go into it and try to find the secret passage to the way forward (it shouldn't be too hard to figure out). From there, you're on your way to the end of the dungeon.
Be sure to do some exploring on your own, as well, to find treasure and such.
Awesome job on making it so far. Can't wait to hear from you when you've finished the game! Of course, if you need more help before then, you're more than welcome.
