[[folder: Fridge Brilliance ]]

* Multiple Leviathans are seen flying about in the opening scene, but what in the pre-Bronze Age world would Atlantis need such massive war machines to fight against? How about the Krakken, seen in the sequel?
** Which would mean that the blast we see was Atlantis's attempt to destroy the thing? Maybe there were more than one. Or if one of the theories on the WMG page is to be believed, they were at war with R'lyeh.
* Kida's full name, Kidagakash, isn't that hard to pronounce. But Milo, an expert linguist who is fluent in Atlantean, gets his tongue tied trying to pronounce it. It's not his fault; he's just DistractedByTheSexy to the point where foreign languages, which normally come naturally to him, start to trip him up. D'aww...

[[folder: Fridge Horror ]]

* A blink and you'll miss it example. As the sub is filling with water, Audrey slams the door on at least two [[RedshirtArmy fellow engineers.]]
** FridgeBrilliance: The whole sub was filling up, without that engine door closed, more of the sub would be flooded, and more lives would be lost.
* Or what about the friend Packard was speaking with over her intercom (the one whose husband left her)? Well, the chances are high that she was on the ship as well. There were no female survivors other than Packard, Audrey and Helga. Understandably, Packard looked quite disturbed after the moment of mourning the dead.
** Probably not; in the sequel, Packard is talking with her about the men who showed her the whole city over the phone.
* Or the fact that the Atlantis they found was only a small portion of the whole continent.
* Most of the Atlanteans are most likely hundreds of years old, and it's heavily implied that this long age is granted to them via the giant crystal under their city. It's certainly proven that the crystal is all that keeps them alive. Now, if Rourke had succeeded in stealing it, what exactly would have happened? Everyone would have aged to dust? Or would everyone have just fallen over dead?
** Maybe they'll just start aging normally from that point? Still FridgeHorror since because they normally life for a very long time, they're not prepared to have children at a population sustaining rate for their new lifespans, including at best a 40 year window for the women.
* Pay very close attention to the scene when Rourke throws Helga off his blimp. As Helga is being tossed over the gondola's railing, you can see her fall in the direction of the blimp's propellers, which are located just below the gondola. She misses them, but it's not hard to imagine what might've happened [[FamilyUnfriendlyDeath otherwise]].
* Milo's surface life is effectively ended before he leaves on the mission: his books are in storage, his clothes are packed, and his resignation has been sent. It's implied he has little to no relationships, so that's fine, too. [[WhatHappenedToTheMouse But he never sees his cat again.]]
** Either Audrey or Whitmore adopts the cat. It's sitting on her lap in the last scene in Whitmore's house.
* Before he dies, the King of Atlantis gravely warns Rourke and his crew about taking the (very angry)mother crystal. We find out why [[BodyHorror when Rourke gets cut by a crystal shard.]] Had Kida/the Crystal reached the surface, countless others might have suffered this fate.
** Nevermind the implied crystallization on contact. The king says that the reason the city sank was because he tried to weaponize the crystal. We're never shown how it would work, but whatever it did caused a mushroom cloud and a tsunami. Now consider that this movie takes place in 1914 and the first World War had just begun...

[[folder: Fridge Logic ]]

* When the toddler Kida loses her toy at the beginning of the movie, as they flee the incoming destruction, her mother says not to go back to get it because there's no time. She ''kneels on the ground'', calmly and slowly explains this to her daughter, and takes several more seconds than it would have taken for Kida to actually dash back and grab her toy.
* Similar to the above: when the Leviathan cripples the ''Ulysses'' and Helga orders to sound the alarm, Packard takes her sweet time actually obeying her. How much faster could they have gotten out of the ship and out of range of the Leviathan, and how many more lives could they have saved, if she had complied immediately?
** Probably, zero more survivors. The time wasted amounted to seconds, and no one else was slowed down by her, except maybe Helga. Honestly, I can't imagine anything happening differently had she left her station immediately.
* Generally knowledge becomes lost because those who had it die out without passing it on. The Atlanteans are effectively immortal. What, everyone ''forgot how to read''? Why?
** Wrath of the Gods?
** [[HolyIsNotSafe Probably out of fear of the same knowledge and technology that destroyed their civilizations]]. Likely the King suppressed all forms of knowledge for fear that some upstart could discover the secret of the Heart of Atlantis and cause yet ''another'' disaster. Therefore, the Atlantis that we see is losing all knowledge of its own cultural identity, its people are kept blissfully ignorant of their own cultural identity, and very likely have forgotten, or never even learnt, how to read in the nearly 9000 years since the flood.
*** The [[{{AllThereInTheManual}} Summer 2001 issue of Disney Adventures]] mentioned that he had the library closed off.
* How could Rourke have known which page of the Shepard's Journal, that contains the exact details of the "Heart of Atlantis", to tear out if Milo's the one that can read Atlantean?
** Illustrations on the page?
** Milo didn't learn Atlantean in a vacuum -- his grandfather, Rourke's old companion from the Iceland expedition, taught it to him. There's every possibility the elder Thatcher inadvertently told Rourke of the importance of that section of the journal.
* When Milo slides off the blackboard at the beginning to take care of the boiler, the chalk stays on. But when he slides off the second time, he indeed does clean it off.
* In the end of the sequel film "Atlantis: Milo's Return", the city of Atlantis finally reaches the surface and is exposed to the rest of the world for the first time in millennia. It would be quite interesting to speculate about humanity's progress over the next century because I suspect that the 2014 of that world would be completely unrecognizable to ours.
** For starters, World War II might NEVER have happened. No Hitler, no Nazis, no Holocaust, no bombings of Hiroshima and Nagasaki, etc.
** Or the opposite. Atomic bombs were regarded as 'the weapon that will end war'... for about three years.
* So the movie needs a group of heroes for the finale, but it's bugging me that the mercenaries are suddenly squeamish about making the biggest payday of their lives. How is killing people not part and parcel of a mercenary expedition like this? Did they not ever expect to kill anyone as mercenaries?
** Probably because it involves mass genocide instead of open combat or grave robbery of a long dead civilization.
** Even most mercenary companies, who accept that they will be killing enemy soldiers just to get rich, generally recognize that it's not ''right'' to strand non-combatants in a situation that will inevitably kill them. EvenEvilHasStandards is pretty common for a reason.
* Kida mentions to her father that the previous kings would weep if they could see how Atlantis has fallen, and later she falls to her knees to pray to their stones around the Crystal. But, Kida's 8500 - 8800 years old and she looks like she's in her late teens - early twenties - how old is her dad? And how old were "the kings of our past" - how long has Atlantis been around?!?!

[[folder: Fridge Brilliance ]]

* The king of Atlantis appears to be blind. When Atlantis was sinking, he told Kida to close her eyes and look away, but kept looking at the crystal as it got brighter. It's likely the flash that it produced making the shield that saved the rest of the city was responsible for taking his sight.
* The King's internal injury would probably not have been fatal - except, of course, that the crystal that powers all the smaller stones' healing power has been taken.