This story is a sequel to Turtles of Equestria

The Rainbooms and Turtles are back together again taking on old foes and new foes with the help of the girls of Crystal Prep and an old robot friend. But with a vengeful ex-principal out to prove the existence of their magic, they may be in for a load of trouble.

This story is a sequel to Equestria Ninja Girls: Forgotten Friendship

The Festival of Friendship is interrupted when the Storm King Invades Equestria. Now Princess Twilight and her friends and ninja friends must ban together and voyage to lands unknown to look for help to stop the evil King and save Equestria.

This story is a sequel to A Rainboom Turtle Christmas

Hoping to find some excitement, the Rainbooms visit the Turtles only to find out Bebop and Rocksteady have allied themselves with Krang and an alternate Shredder who hope to conquer their dimension.

This story is a sequel to Equestria Ninjas: The Movie

After the Mutagen Bomb, the world was wiped out, leaving the turtles and the Rainbooms separated from each other. Now they must fight to survive in the apocalyptic wasteland from the threat of warring mutant gangs all while trying to find the only place left in the world that has any life to it.

This story is a sequel to Equestria Ninja Girls: The Shredder's End

After defeating Kavaxas, the turtles felt it was some time for a little break. So they join Sunset Shimmer in Equestria to meet some old familiar faces, and gain a little cultural experience. While also dealing with new threats and dangers as well. Still nothing has ever stopped these green ninja machines before, and they won't now.

This story is a sequel to Equestria Ninja Girls

Picking up where they left off, the Rainbooms after escaping the planet earth's destruction at the hands of the Triceraton Empire are given a second chance to stop them from destroying their planet. They're transported from Equestria back to their world on board a space ship where the turtles and their friend the Fugitoid set out into space to stop the Triceratons and retrieve the Heart of Darkness.

Sequel to Equestria Ninja Girls. Highly recommend read first before reading this.

Twilight and the girls of Canterlot High travel to New York to take on the Dazzlings who have allied with a mad man bent on revenge. The girls only hope to face the trio of sirens and their ally is in the form of four mutant turtles, their master, and their two human friends. MLP/Ninja Turtles crossover.

Inspired from a fan video.

This story is a sequel to Equestria Ninja Girls in Space

After a mishap with a portal, the Turtles and their human allies find themselves joining the Rainbooms at Camp Everfree where there's mystery and magic in the air. With the Rainbooms gaining new magical abilities, they take their next step in their ninja training to learn to control their new powers and defend their friends from a danger lurking within the camp itself.

Sequel following the events of Equestria Ninja Girls in Space. Recommended to read before this.

This story is a sequel to Turtles of Everfree

After the death of Master Splinter, the Rainbooms and Turtles team up to take the fight to the Super Shredder with the aim of ending him once again for all to avenge their sensei. Will their combined strength and friendship be enough to overcome the rage and evil of the most powerful mutant they've ever tussled with?

This story is a sequel to Godzilla's Lost Child

It all started out when Godzilla awoke from the ice. He went towards the Crystal Empire and easily defeats the Mane Six, only to find out that Twilight Sparkle is his long-lost daughter. He wanted to put his rage behind him, put Equestria behind him, put everything behind him and his daughter.

It went typical from there, a new threat arrives, Twilight returns to Equestria with her friends, fights the threat, accepts her past and defeats it, achieving a hybrid form in the process. But this isn't the end of the story of Twilight Sparkle's adventures.

Three months after the events that led Twilight to accept who she is, and a new adventure begins as a mysterious island a little more than four times the size of Manehattan rises form the ocean waters a few miles southeast of the Dragon Island, one containing an even more mysterious city that was hidden under the sea for millions of years, one supposedly inhabited by the humans from the past.

Now, Twilight Sparkle had another adventure in hand, but this time, she's not alone. Follow her as she and her friends search for the city's ancient knowledge along with a mysterious griffon hermit before they fall into the hands of another evil set on world domination.