One interesting Naruto Atlantis fanfiction could be about Naruto discovering a hidden portal in Konoha that leads him to Atlantis. There, he might learn new jutsus from the Atlantean magic system. Another could involve Naruto being sent on a mission to Atlantis to retrieve a powerful artifact that could change the balance of power in the ninja world.
One interesting crossover could be Naruto's ninja skills in the world of Atlantis. For example, his ability to use shadow clones could be used to explore different parts of Atlantis simultaneously. Maybe he could also use his Rasengan to break through some of the ancient defenses in Atlantis. Another aspect could be the sharing of chakra with the Atlanteans. Since chakra is a form of energy, it might interact in unique ways with the magic or technology of Atlantis.
Another interesting concept is a fanfic where Naruto is sent to Atlantis to learn a new form of chakra control. In Atlantis, he meets unique characters who have different ways of using energy, and he has to adapt and learn from them. This could lead to him developing new jutsu.
Some of the top Stargate Atlantis fanfiction include 'The Wraith's New Plan'. This one gives a fresh perspective on the Wraith and their strategies. 'Atlantis Under Siege' is full of action as the city faces a new and powerful enemy. There's also 'The Pegasus Galaxy Unveiled' which explores parts of the Pegasus Galaxy that were only hinted at in the show, and it does a great job of expanding the Stargate Atlantis universe.
There's a fanfiction where Rodney McKay discovers a new form of Ancient technology that could potentially change the course of the war against the Wraith. It delves deep into his character, showing his excitement and determination to figure out how it works. This one is really interesting as it also shows how the other characters react to his discovery, some with hope and some with caution.
At first, Naruto would be in awe of Atlantis. But his natural curiosity would drive him to explore. He'd adapt by observing the Atlanteans. For instance, if they have a way of communicating with sea creatures, Naruto might try to learn it. His chakra control could be used to mimic some of their abilities. He'd also adapt his fighting style to the new environment, perhaps using the water currents to his advantage in combat.
Maybe Percy is sent on a quest to Atlantis because there are rumors of a traitor among the Atlanteans who plans to side with the Titans. Percy has to navigate the complex political situation in Atlantis and figure out who the traitor is before it's too late. He also has to deal with the Atlantean magic which is different from what he's used to.
One idea could be exploring the backstories of the secondary characters more in - depth. For example, what was the life of the mechanic before joining the Atlantis expedition? Another could be a story where the Atlanteans start to rebuild their civilization above ground, facing new challenges. Maybe a third idea could be a time - travel fanfic where modern characters go back to the prime of Atlantis and see how their technology and culture were at their peak.
In fanfiction where Percy is raised in Atlantis, his powers could evolve in unique ways. The energy or magic of Atlantis might enhance his water - related abilities. He could gain the ability to communicate with sea creatures in a more profound way, or perhaps he could control not just water but also other elements related to the underwater environment like the currents and the temperature of the water more precisely.
One idea could be that Hogwarts students discover a hidden portal to Atlantis during a Care of Magical Creatures class in the Forbidden Forest. They then have to navigate the ancient Atlantean society, which has its own form of magic. Maybe they need to team up with Atlantean wizards to defeat a common dark force that threatens both their worlds.
Another possible plot is a love story set against the backdrop of the Throne of Atlantis. Maybe a Justice League member, like Wonder Woman, falls in love with an Atlantean noble. But their love is complicated by the political unrest in Atlantis and the impending threat to the Throne. They have to fight against both external enemies and internal opposition to be together while also saving Atlantis.