One interesting storyline could be Pokemon trainers arriving in Equestria and learning about the magic of friendship there. They might team up with the ponies to solve problems, like dealing with a group of misbehaving Pokemon that are causing chaos in Ponyville.
One interesting storyline could be a human getting accidentally transported to Equestria and having to learn the ways of the ponies while forming deep friendships. They might help the ponies solve a big problem like a drought or a magical mystery. Another could be a pony coming to the human world and experiencing human culture for the first time, like going to school or trying different foods. There are also fanfictions where a human and a pony have a telepathic connection that allows them to understand each other on a deeper level and work together to save both their worlds.
Often, the Pokemon characters bring their skills like battling and training, while the MLP characters offer their friendship - based magic. For example, a Pokemon trainer might teach the ponies about strategic thinking in battles, and the ponies could show the trainers how to use the magic of friendship to boost their Pokemon's morale.
In some 'pokemon x the gamer fanfiction', there could be a story where a gamer discovers a hidden part of the Pokemon game that has real - world implications in the Pokemon universe. For example, they find a glitch in the game that turns out to be a secret portal to a new region full of rare and powerful Pokemon. They then have to navigate this new area while also trying to figure out how this portal even exists.
One possible storyline could be that Naruto finds himself in the Pokemon world and meets Serena. They could team up to compete in Pokemon battles. Maybe Naruto's ninja skills give him an edge in strategizing during battles, and Serena teaches him about the nuances of Pokemon training.
One possible storyline could be Naruto and Pikachu forming an unexpected bond. Maybe Pikachu helps Naruto during a difficult battle in the Naruto world using its electric powers. Another could be Naruto traveling to the Pokemon world and learning about the different Pokemon types and how they interact with each other.
One interesting storyline is when the male reader discovers a rare and powerful Pokemon that no one else has seen before. This could lead to a whole adventure of protecting it from those who would misuse it. Another is when the male reader gets transported to a different era in the Pokemon world and has to adapt to the different Pokemon species and training methods of that time.
One interesting storyline could be Ash and Lusamine teaming up to save a rare and powerful Pokemon that is being hunted by an evil organization. Their combined skills and knowledge would make for an exciting adventure.
One interesting storyline could be about a trainer from Kanto (the region of Pokemon Red and Blue) traveling to Alola. They might face challenges in adapting to the new environment and different Pokemon species. For example, they could struggle to understand the unique Z - Moves in Alola while trying to use their traditional Red and Blue battle strategies.
A cool fanfiction idea is a story where a legendary Pokémon ends up in Equestria. For example, Mewtwo could arrive and the ponies initially fear it due to its power. But then they realize Mewtwo is just lost and confused. The ponies, with their kind hearts, try to help Mewtwo find its way back home. Meanwhile, the Pokémon could learn about the magic and friendship in Equestria.
One interesting storyline could be Apple Jack's journey to find a rare apple variety that is said to have magical properties. This could involve her traveling to different parts of Equestria, facing various obstacles along the way, and making new friends. Another storyline might be her trying to teach the younger ponies in Ponyville about the importance of hard work and honesty, just like she learned from her family.