It's a really tough call between the Floating Continent and Lunatic Pandora, but L.P. edges ahead because *Spoiler* you go through it twice in different orientations. Almost like two different dungeons in one. And you get different items each time!
Floating Castle [FF]
Whirlwind [FFII]
Elder Tree [FFIII]
Tower of Zot [FFIV]
Ronkan Ruins [FFV]
Floating Continent [FFVI]
Lunatic Pandora [FFVIII]
Chocobo Air Garden [FFIX]
It's a really tough call between the Floating Continent and Lunatic Pandora, but L.P. edges ahead because *Spoiler* you go through it twice in different orientations. Almost like two different dungeons in one. And you get different items each time!