One idea could be a crossover where Ben Tennyson ends up in the Young Justice universe. He could team up with the young heroes to fight a common enemy. Maybe a group of villains from both universes join forces, and Ben uses his Omnitrix to transform into different aliens to help in the battles.
One idea could be to have Inuyasha end up in the Young Justice universe through some sort of magical portal mishap. He could initially be seen as a threat due to his demon nature and his sword, Tessaiga. But then the Young Justice team realizes he's more of a lost soul and they try to help him get back home while also dealing with villains who want to use Inuyasha's power for their own gain.
One idea could be a crossover where Naruto is somehow transported to the Young Justice universe and teams up with the heroes there, and then they encounter Wonder Woman. Maybe Naruto's unique jutsu skills can be used in a joint mission with the Young Justice team's powers and Wonder Woman's abilities.
One idea could be a crossover where a character from Young Justice gains the Rinnegan somehow. Maybe through a strange experiment gone wrong that links dimensions. They then have to figure out how to control its powers while still being part of their team in Young Justice. It could lead to some interesting power - up moments and new story arcs.
One idea could be to have Ben Tennyson end up in the Young Justice universe by accident. Maybe his Omnitrix malfunctions during a fight and transports him there. He could then team up with the Young Justice heroes to fight a common enemy like the Light or some new villain that's a threat to both universes.
One idea could be that Ben Tennyson somehow ends up in the world of Highschool DxD. Maybe his Omnitrix gets a strange power-up that transports him there. He could use his alien forms to interact with the characters in DxD, like using Four Arms in a fight against some of the devils or fallen angels.
One idea could be that the Shinju's power somehow connects the Naruto universe and the Justice League's universe. Maybe the Shinju's energy creates a rift, and Naruto characters end up in the Justice League's world. They could team up to fight a common enemy that is attracted by the strange energy of the Shinju. For example, a powerful demon from Naruto's world could be drawn to the new universe and the Justice League, with their high - tech and superpowers, join forces with Naruto and his friends who have ninja skills and chakra abilities.
Another possibility is a post - Endgame fanfiction. After the events of Endgame, the Avengers discover a new threat that has ties to the Justice League's world. Maybe a powerful villain from the DC universe has somehow been awakened by the events in the Marvel universe. So they have to reach out to the Justice League for help and together they figure out a way to stop this new threat.
One idea could be a crossover where Goku is accidentally transported to the Justice League's universe. He might initially be seen as a threat due to his power but then they realize he's a good - hearted fighter. They could team up to fight a common enemy like Darkseid who has somehow acquired the Dragon Balls and is using them for his evil plans.
One idea could be that Iron Man's technology gets mixed up with Justice League's alien tech. Maybe he creates a new suit using some of the Kryptonian crystal technology he discovers while working with Superman. This new suit gives him powers similar to Superman for a short time, but it also has some unexpected glitches that lead to humorous or dangerous situations.
One idea could be that the Omnitrix somehow gets mixed up with the magic of the sirens. Ben, as one of his alien forms, has to deal with the alluring powers of the sirens in the My Little Pony world. Maybe he has to stop them from using their voices to take over Equestria while also not getting charmed by them himself.