This story is a sequel to The Doctor Whooves Chronicles Episode 4: Under the Sea

After attending a crazy wedding, Derpy asks the Doctor to take her somewhere relaxing. However, their plans are changed when a unicorn by the name of Twilight Sparkle stumbles into the TARDIS and the TARDIS takes them to a war-torn planet over 600 years in the future. Things only get worse when the three travelers are taken prisoner, but this is only just the beginning.

This story is a sequel to The Doctor Whooves Chronicles Episode 3: The Monster in the Mirror

For their first willing trip together, the Doctor and Derpy find themselves in the underwater metropolis of Atlantis. However, the saltwater utopia is burdened by terrorists who wish to keep Atlantis separated from the overworld. With the Prince of Equestria visiting and the life of the King of Atlantis threatened, the watery city is about to reach its boiling point.

This story is a sequel to The Doctor Whooves Chronicles Episode 2: Queen of the Moon

The Doctor returns Derpy to her time but their parting is put on hold with a surprise appearance by Carrot Top and two of her friends as well as the arrival a mysterious spaceship that crashes in a forest on the outskirts of Ponyville. However, something sinister resides in the ship and it has its eyes set on one target: Derpy Hooves.

The Doctor suddenly finds himself in the world of Equestria following his TARDIS accidentally passing through the void. He tries to head back to his universe, but things get complicated when a pegasus named Derpy finds her way into the TARDIS and they end up traveling back to Equestria's distant past.

This story is a sequel to The Doctor Whooves Chronicles Episode 1: Derpy

The Doctor and Derpy arrive on the Moon in the distant future to find that ponies have set up a massive colony there. However, something dark is lurking deep within the crust of the Moon and it vows vengeance on a certain Princess Luna.

This story is a sequel to The Doctor Whooves Chronicles Episode 5: Prisoners of War

It's been a month since the return of the Twilight King, Dusk. Twilight is still his captive and the Doctor, Derpy, and Marcus have taken refuge on Ruleo to gain backup in their plan to infiltrate the new land of twilight. But there is more waiting for the Doctor and his friends beyond the twilight curtain than just an evil, powerful tyrant.