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.
There are also fanfics that expand on the Atlantis setting itself. They might describe new parts of the city that were not shown in the original series, or create new adventures that take place within the city's unique architecture and technology.
The novel 'Enemy at the Gate' is also quite popular. It focuses on the conflict between the Atlantis team and various enemies. It shows how the team uses their wits, the Stargate technology, and their knowledge of the Ancients to defend Atlantis from outside forces. It's full of action - packed scenes and tense moments as the team races against time to protect their new home.
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.
In my opinion, 'The Lost Tribe' is among the best. It has an exciting plot that takes the characters on a journey full of mystery and danger. It also further explores the mythology of the Stargate universe in the context of Atlantis. And 'Entanglement' is also quite good as it focuses on the scientific and technological aspects as well as the personal relationships within the Atlantis team.
First, know both universes well. For a Stargate Atlantis crossover, you need to understand the technology, characters, and settings of Stargate Atlantis as well as the other universe you're crossing it with. Then, come up with a unique concept. Maybe it's a situation where the Atlantis team has to team up with characters from another show to defeat a common enemy. Keep the characters in - character. If you're writing a crossover with, say, Star Wars, make sure the Atlantis characters act as they would in their own show while interacting with the Star Wars characters.
One great Stargate Atlantis crossover fanfiction is 'Atlantis in the Star Trek Universe'. It combines the unique elements of both franchises in an exciting way, with the Atlantis team facing new challenges in the Star Trek setting. The characters are well - written and it's a fun read for fans of both shows.
Some popular Stargate fanfiction stories often involve the further adventures of the main characters. For example, there are ones that explore new planets and alien species that the Stargate teams might encounter. They might also focus on character relationships, like the friendship between Daniel and Jack. These fanfictions can be found on various fanfiction websites.
In a Naruto and Stargate Atlantis crossover fanfiction, one possibility is that Naruto's unique jutsu could be used in the context of the Stargate Atlantis universe. For example, his Shadow Clone Jutsu could be a great asset during battles against the Wraith. The Atlantis team might be initially skeptical but soon realize the power Naruto brings. Maybe Naruto could also learn from the advanced technology in Atlantis, like how to use Ancient weapons with his chakra.
There might be a fanfiction where the characters from Harry Potter are somehow transported to the world of Stargate Atlantis. Harry, Hermione, and Ron could find themselves in a completely different environment, having to learn about the Pegasus Galaxy and its threats. Maybe they would use their magical skills to fight off the Wraith. It would be a great story of two different fictional universes colliding and the characters having to adapt to each other's worlds.
Another common theme is the development of their relationship. It could be a romantic relationship or a strong friendship. Writers like to explore how these two characters, with their different personalities, come to rely on each other. In many stories, they start out as strangers or even at odds, but gradually grow closer through shared experiences.