Jesse and James from Team Rocket are always interesting. Their use of hypnosis adds a new layer to their already complex characters. They become more menacing when they can hypnotize their opponents. Also, Ash can be an interesting character in this context. His determination to break free from hypnosis or protect his Pokemon from it shows his strong will. And Pikachu too. Imagine Pikachu trying to fight off the effects of hypnosis while still being its cute and powerful self.
In Pokemon Team Rocket hypnosis fanfiction, Giovanni is an interesting character. As the leader of Team Rocket, his motives behind using hypnosis could be explored. Is he just after power or is there something more sinister? Misty can also be interesting. She has a fiery personality and would likely put up a strong fight if she or her Pokemon were targeted by hypnosis. And Brock, with his knowledge of Pokemon care, could be in a unique position. He might try to find a way to reverse the effects of hypnosis on Pokemon using his skills and understanding of their biology.
Definitely Jesse and James. Their antics with hypnosis make them stand out. They might try to hypnotize a powerful legendary Pokemon and then struggle to control it, creating all sorts of chaos. Meowth is also quite interesting. Since he can talk, he could be used in different ways in the hypnosis scenarios. He might be the one to accidentally disrupt the hypnosis or be the first to realize the negative impacts of it on their plans. And then there's Professor Oak. If he gets involved in a story about Team Rocket's hypnosis, his knowledge could be used either to counter it or be a target of it.
One common theme is the power struggle. Team Rocket uses hypnosis as a tool to gain an upper hand in their devious plans against Ash and his friends. For example, they might try to hypnotize Pikachu to steal it. Another theme could be the moral dilemma. The characters who are hypnotized often face a battle between their true selves and the commands implanted by the hypnosis. It also often features the idea of breaking free from the hypnosis, showing the strength of the bond between Pokemon and their trainers.
Ash is obviously one of the most popular characters. He's the main character of the Pokemon anime, and in fanfictions, his adventures with or against Team Rocket are always interesting. People like to see how he reacts to different situations that Team Rocket creates or how he manages to outwit them.
One interesting Pokemon Team Rocket fanfiction could be about a Team Rocket member who has a change of heart. For example, they might start to see the beauty in the relationship between trainers and their Pokemon and decide to secretly help the heroes instead of causing trouble.
Obviously, Ash and Jessie, James, and Meowth from Team Rocket are the most popular. Ash is the main hero, and the Team Rocket trio is always causing trouble for him, so they are central to most fanfictions in this theme.
One idea could be creating an OC who was originally a regular Trainer but got corrupted by Team Rocket's ideals. For example, they might have lost a big Pokemon battle and felt so defeated that they were easily swayed by Team Rocket's promises of power. Another idea is an OC who is a double agent within Team Rocket, secretly working for the good guys to bring down the organization from the inside. They could have a unique Pokemon partner that helps them in their undercover work.
One interesting storyline could be Team Rocket actually helping Ash in a dire situation. Maybe they realize that a greater evil is about to destroy the Pokemon world and they decide to team up with Ash for once. Their skills in stealing and sneaking around could be useful in gathering information about this new threat.
Definitely Ash. His journey and how it's affected by the transformation can be the heart of the story. Team Rocket has so much potential. They could be the cause of the transformation, or they could be accidental victims too. Another character worth focusing on is Tracey. He's not as well - known as some of the others, but that could be used to an advantage. He could be the one who discovers a hidden aspect of the transformation. And don't forget about the Pokémon in the Pokémon Center. They could be witnesses to strange happenings related to Ash's transformation and could play a small but important role in the overall fanfiction.
The main characters might not only be human trainers. Some Pokemon could take on leading roles. For example, a powerful and wise Charizard could be a main character. It might have been trained by a famous trainer in the past but now fights independently against Team Rocket. There could also be a group of Eeveelutions that are the main focus. They have different abilities and personalities, and together they form a force to be reckoned with against Team Rocket. Alongside them, there could be a trainer who acts as a guide or coordinator for their efforts.
It's really hard to say. Team Rocket has a lot of experience in underhanded tactics and has some powerful Pokémon at their disposal. But Team Plasma has a large following and their ideological drive can give them an edge in terms of determination. It could go either way depending on the specific plot and the Pokémon each side has.
Team Rocket and Team Plasma have some interesting differences. Team Rocket is more about classic criminal activities like stealing Pokémon for profit. In fanfiction, they often clash with trainers in a more straightforward, greedy way. Team Plasma, on the other hand, has the ideology of 'liberating' Pokémon, which can lead to complex storylines. In many fanfictions, their clash is not just about power but also about different views on Pokémon-human relationships.