There could be a fanfiction where a strange energy source affects Optimus Prime and Megatron, causing them to swap personalities or abilities. This would be a humorous yet also thought - provoking plot. They would have to navigate their new selves while still trying to lead their factions. The Autobots would be confused by an aggressive Optimus and the Decepticons would be equally bewildered by a more pacifist Megatron.
Perhaps a fanfiction where a powerful artifact is discovered that has the potential to change the balance of power on Cybertron. Megatron wants it for his own gain, and Optimus Prime wants to protect it. But when they both touch it simultaneously, they are transported to an alternate dimension where they must work together to find a way back, all while learning more about each other than they ever thought possible.
Perhaps there's a story where Optimus and Megatron are both stranded on a desolate planet. Without their armies and with limited resources, they have to rely on each other to survive. As they struggle to find a way off the planet, they start to understand each other better. Megatron realizes that Optimus isn't just a naive idealist and Optimus sees that Megatron has reasons for his actions that are more complex than just pure evil.
One plot idea could be that Megatron and Optimus Prime are forced to team up in an alternate dimension. They have to put aside their differences to face a common enemy that is threatening the very fabric of that dimension. Maybe it's an ancient evil that has the power to destroy all Cybertronians.
A really interesting plot could be set in an alternate universe where Bumblebee and Optimus Prime are not part of the Autobot - Decepticon war. Instead, they are explorers. They could encounter a strange new planet or a powerful ancient artifact that tests their relationship and their understanding of each other. This would be a great opportunity to explore their characters outside of the typical war - torn setting.
One plot idea could be that Optimus Prime and Starscream are forced to team up during a crisis that threatens both Autobots and Decepticons. They start to see each other in a new light and develop an unlikely friendship. Another could be a story where Starscream is injured and Optimus Prime has to make the choice between helping him or leaving him to the mercy of other Decepticons. This could lead to a complex relationship between them. A third idea is a time - travel plot where they end up in an alternate universe where their roles are reversed and they have to figure out how to get back to their own universe while dealing with their changed relationship.
Another plot could be set in a post - war scenario. The Autobots are rebuilding their world, and Optimus Prime and Arcee are tasked with different aspects of the reconstruction. However, they keep finding excuses to work together. As they do, they gradually fall in love while also dealing with the trauma of the war and the challenges of creating a new future for their kind.
The plot could be about a power struggle. Megatron wants total control over Cybertron, but Optimus Prime stands in his way. However, instead of just fighting, there are political intrigues involved. There could be other characters influencing their decisions. Maybe some Autobots who think Optimus is being too soft on Megatron, and some Decepticons who think Megatron is being too cautious.
Fanfiction about them can explore different universes and scenarios. For example, what if they were raised together? How would their relationship be different? It gives fans a chance to play with the established lore and create new and exciting stories that the official Transformers storylines may not explore. It also allows for deeper exploration of their motives and personalities.
One idea could be that Optimus Prime somehow ends up in the RWBY universe and teams up with Team RWBY to fight a common enemy. Maybe a new type of Grimm that is attracted to his Cybertronian energy.
One interesting storyline could be a story where Megatron is injured in battle and Optimus Prime, against all odds, decides to take him in and nurse him back to health. During this time, they start to see each other in a different light and develop an unexpected bond.