A possible plot could be that the Black Knight is wrongly accused of a crime. Rex and Generator Rex are initially tasked with capturing him. But as they get to know him during the chase, they realize he is innocent. So, they join forces to find the real culprit who is actually a powerful and corrupt figure trying to frame the Black Knight to gain more power in the post - apocalyptic world.
In a world where a new and dangerous virus is spreading that affects both humans and EVOs, the Black Knight has a possible cure. Rex and Generator Rex hear about this and seek him out. However, the Black Knight is hesitant to share the cure as he doesn't trust them at first. As they prove their worth by helping him fight off some infected EVOs, he begins to trust them. Together, they then work on a plan to mass - produce the cure and save the world from this new threat.
In a post - apocalyptic world, Generator Rex was on a mission. Rex was also exploring the same area. They both heard rumors of the Black Knight. When they finally met the Black Knight, he was not what they expected. The Black Knight had a code of honor. Rex was intrigued and Generator Rex was curious about his technology. They started to exchange knowledge. The Black Knight taught them some ancient combat techniques and in return, Generator Rex shared his knowledge of advanced machinery. Rex learned a lot from both of them and they became friends, vowing to protect the world together.
Once upon a time, Generator Rex was exploring an old, abandoned facility. There, he encountered the Black Knight. The Black Knight was initially cautious of Rex. However, Rex was curious about the Black Knight's origin. As they interacted, Rex showed off his nanite - based abilities, like creating various weapons from his body. The Black Knight was impressed and decided to share some of her secrets with Rex. Together, they decided to face a new breed of EVOs that were causing chaos in the city.
One possible fanfiction could be about Rex's adventures in a new, uncharted area where he discovers a strange new type of E.V.O. He has to use his powers in creative ways to deal with it and learn more about this new threat or ally.
To make a Generator Rex and Black Knight fanfic interesting, you can start with a mystery. For instance, the Black Knight is investigating a series of disappearances that seem to be related to Rex's nanite experiments. Rex is unaware of this and is just going about his normal business. When they meet, there's a lot of suspicion. As the story progresses, they find out that there's a hidden organization behind the disappearances that wants to use Rex's nanites for evil. They then have to work together to stop this organization. You can also add some humor, like Rex accidentally creating a ridiculous - looking weapon with his nanites that makes the Black Knight laugh in the middle of a tense situation.
Fanfiction about Rex and Six could also involve a mission where they are sent undercover. They have to pretend to be ordinary people in a community that is on the verge of being overrun by E.V.O.s. They need to figure out how to stop the E.V.O.s without blowing their cover, and in the process, they learn more about each other's personalities outside of the battlefield.
The plot could be centered around a strange energy anomaly that pulls Rex into the Naruto world. At first, there's confusion and a bit of mistrust between them. But as they start to understand each other's powers, they realize they can help each other. They join forces to stop a group of rogue ninjas who are using some kind of stolen technology similar to Rex's nanites.
One idea could be that Rex discovers a hidden power within Fairy Tail that was long forgotten. This power could be related to an ancient magic that only he can unlock due to his unique connection with the guild.
One idea could be that Rex and Breach are forced to team up against a new, powerful EVO that threatens their mutual interests. Along the way, they start to understand each other's pasts and develop a grudging respect. For example, Rex could learn about Breach's difficult upbringing in the Nanite Collective and start to see her in a new light.
Another plot could be that an interdimensional rift opens up, and it's causing chaos in both Ben's and Rex's worlds. They discover that the source of the rift is related to the technology of both the Omnitrix and the Nanites. Together, they journey through the rift to find the cause and close it. Along the way, they meet alternate versions of themselves and their friends, which adds an interesting twist to the story.
One idea could be that Ben and Rex have to team up to stop a new villain who has the ability to disrupt both Omnitrix - based powers and Rex's nanites. They start off not trusting each other but as they face challenges, they learn to work together.