This story is a sequel to Doctor Whooves Episode 5: Before the Chaos

The Doctor finally manages to return Twilight to 1002, only to discover that he's brought her back a little bit late. As the suspicious citizens of Ponyville turn on the Doctor, a strange army led by an old foe invades the town.

This story is a sequel to Doctor Whooves Episode 2: The Awakening

The TARDIS takes the Doctor and Twilight to the planet of Eugora in the year 1899. Here they come across a group of pony soldiers, explorers, and scientists. However, the forests of Eugora hide dark secrets and the Doctor, Twilight, and others find themselves facing off against two deadly enemies, and the Doctor knows one of them.

* This Story has been rebooted

Sunset Shimmer is a school bully in the making, The Doctor is a intergalactic hero, clearly these two couldn't become companions right? Right?

Co-Writer: Doc Grant, Disavowed Ash

This story is a sequel to Doctor Whooves Episode 7: The Good, the Bad, and the Derpy

The Doctor, the Mane 6, Derpy, and Spike travel to 4376 and find themselves on a luxury spaceship called the Queen Philippine, which is currently on its maiden voyage. What starts off as an interesting adventure turns into a fight for survival when the ship loses power and becomes host to some unwanted passengers.

This story is a sequel to Doctor Whooves Episode 9: Triple Rainbow

It's been a month since the Mane 6, Derpy, and Spike started traveling with the Doctor. Things suddenly take a turn for the worse when a foil from Twilight's past mysteriously appears in the TARDIS and they all end up trapped in a seemingly-abandoned asteroid base that has a bad infestation.

This story is a sequel to Doctor Whooves Episode 8: Maiden Voyage

The TARDIS brings the Doctor, Twilight, Derpy, and the others to the Griffin Kingdom in the year 1021. Here they meet a 38-year-old Rainbow Dash training for the Gailenean 1000. Meanwhile, a third Rainbow Dash from an alternate reality appears but with much darker goals in mind.

This story is a sequel to Doctor Whooves Episode 6: A Ponyville Invasion

With Thalia continuing her invasion of Ponyville, Derpy and the others find their last chance at stopping her in the hooves of a future regeneration of the Doctor. Meanwhile, the Doctor teams up with an ally from the past to rescue Twilight and Rainbow Dash and ultimately save the town.

This story is a sequel to Doctor Whooves Episode 3: Aliens Among Us

After leaving Eugora, the TARDIS takes a giant leap through time and sends the Doctor and Twilight to Canterlot in the year 987. Here they come across an 8-year-old Shining Armor who is dreaming of becoming a royal knight. However, a devious villain has set her sights on the young unicorn and it's up to the Doctor and Twilight to save his magic, his life, and his future.

This story is a sequel to Doctor Whooves Episode 10: The Magician and the Angels

The Doctor heeds to Applejack's request and has the TARDIS take them to July 6, 996. It quickly becomes apparent that Applejack has a plan to change a certain event that occurred on this day. But her choice to attempt to change her future could very well lead to the destruction of the entire universe.

This story is a sequel to Doctor Whooves Episode 1: The Doctor in the Box

Following an accident with the TARDIS, the Doctor and Twilight find themselves 1000 years in the future. Here they find a futuristic Equestria, a confused Queen Celestia, and a pony from the Doctor and Twilight's future who wants revenge.