A possible plot could involve the Ghost Rider being summoned by an ancient evil in Equestria. This evil wants to use the Ghost Rider's power for its own malevolent purposes. The ponies, led by Twilight Sparkle, team up with the Ghost Rider to defeat this evil. Along the journey, the ponies learn about the Ghost Rider's tragic past and how he became what he is, and they help him find a new sense of purpose beyond just vengeance.
Obviously, the Ghost Rider could be a main character. He would bring his unique powers and his dark, brooding personality to the story. Twilight Sparkle could also be a main character. She's very intelligent and curious, so she would be the one to try and figure out who the Ghost Rider is and how he can help or harm Equestria.
Perhaps it could be about a haunted castle in Equestria. The ponies might discover the castle and find strange happenings like objects moving on their own or mysterious voices. Then they use their friendship and magic to figure out the mystery behind the hauntings and maybe even befriend the 'ghost' which turns out to be a lost spirit in need of help.
One possible plot could be that Godzilla somehow gets transported to the world of My Little Pony. The ponies are initially terrified, but then they realize Godzilla is there because he's being chased by an even greater threat from his own world. So, the ponies, with their magic, decide to help Godzilla fight off this threat and in the process, they learn about each other's strengths and form an unlikely friendship.
One possible plot could be that some Pokemon accidentally end up in Equestria. The ponies are initially scared but then they realize the Pokemon are friendly. Together, they team up to stop an evil force that threatens both their worlds, like a powerful dark - type Pokemon and an evil unicorn. They use their combined powers of friendship and unique abilities to defeat the enemy.
One possible plot could be that Spongebob somehow gets transported to Equestria. He befriends Pinkie Pie first because of their similar energetic natures. They start having a party together, and Pinkie Pie shows Spongebob around Ponyville. Then, they might encounter a problem like a mysterious spell that's making all the ponies sad. Spongebob, with his positive attitude, tries to help the ponies cheer up and along the way, he meets Twilight Sparkle who teams up with him to find a way to break the spell.
One possible plot could be that Naruto somehow gets transported to the My Little Pony world. He might initially be confused by the colorful and peaceful land, but then he could use his ninja skills to help the ponies when they face a threat, like a powerful dark magic user. He could teach the ponies some of his combat moves, and in return, learn about the magic of friendship from them.
A really interesting plot could be that a powerful villain from Mortal Kombat decides to invade the My Little Pony world. The ponies then have to team up with some of the good - hearted Mortal Kombat characters. Fluttershy, being the kind - hearted pony she is, could try to befriend some of the more aggressive Mortal Kombat fighters and convince them to help protect their world too. The ponies would then have to adapt to the much more violent combat style of Mortal Kombat.
One possible plot could be that Spongebob and Patrick get lost in a magical portal and end up in Equestria from My Little Pony. They meet Twilight Sparkle and her friends. Spongebob's positive attitude and Patrick's goofy nature could create some humorous situations as they try to figure out how to get back home while also getting involved in the local pony adventures, like helping to solve a problem with a magic spell gone wrong.
In a 'pokemon meets my little pony fanfiction', a great plot could be that there's a dark force threatening both the Pokemon and My Little Pony universes. A group of strong Pokemon like Charizard and a team of brave ponies including Rainbow Dash join forces. They travel through different regions of both worlds, gathering allies and learning new skills from each other to defeat this common enemy. It would be full of action, friendship, and discovery.
One idea could be that Flim tries to convince Applejack to partner with him in a new business venture. He claims it'll be great for her apple business, but Applejack is skeptical as she remembers his past shady deals. So, she has to outwit him and teach him an honest way of doing business.