History teaches us that Star Swirl The Bearded was one of the greatest unicorn mages ever to have lived. But history is notoriously fickle. Was Star Swirl really the stallion everyone thinks he was? What was the secret of his beard? What the heck was the amniomorphic spell? Discover the truth about Star Swirl, and the greatest con in Equestrian history...

This story is a sequel to Hard Reset

After the events of Hard Reset Twilight's life and mental well being are slowly returning to normal. Her recovery is cut short, though, when a letter arrives informing her that the time loop spell she cast is causing severe damage to space and time itself. In over her head, Twilight tries to summon anypony who will know how to fix it. The pony she gets is the last one she ever thought she would meet... and nothing like she expected him to be.

Available in Spanish thanks to dgs1993
Series TV Tropes page

The Discordian Era is a dystopia ruled by the whims of its tyrant master. Caughlin Mare, resigned to a life of research in captivity underground, only wants to make life more bearable for the ponies above. When the sole surviving rebel group, the Order of Order, comes calling, an opportunity unlike any other is offered. Yet, there is more to the group than meets the eye, and she finds herself flung into an entirely new world: of advanced magic and technology, of adventure, of manipulation, of hope and betrayal - of what it means to love and hate.

An origins story featuring Derpy, Discord, and magitech, among other things. Accurate, or will strive to be, up until Season 3. Edited, fleshed out, and generally touched up to be cooler by one-fifth since its EqD feature.

This story is a sequel to A FLEet|ng LIght |n thE DArknEsS

Case Report: Summary of Events
Submitted by: Verdant Vines
Location: Ponyville
Date(s): April 16th to April 23rd
Case: Ponyville Mass Disappearance (#3467)
Classification: Top Secret

To whom it may concern,

What follows is an update on the status of the investigation into the disappearance of the entire citizenship of Ponyville.

Readings:
Nimbus Productions - First Chapter
Scribbler Productions - Full Story

I highly recommend both of them.

A print version of all the stories in this series can be found here. (There is currently a printing error I am working to correct. This will be available again soon.)

The following transcripts are of a journal found in Ponyville on April 16th of this year. The last recorded contact with the town had been 3 days prior, on the 13th, when a team under orders from Princess Celestia was sent to look into several missing pony reports in the area. When another group of investigators were sent on the 16th, the town was found deserted. The journal’s owner is believed to be the princess’s personal student, Twilight Sparkle. None of the town’s inhabitants have been located in the weeks since.

Readings:
Nimbus Productions
Scribbler Productions

I highly recommend both of them.

A print version of all the stories in this series can be found here. (There is currently a printing error I am working to correct. This will be available again soon.)

Now with TVTropes page! Show it some love: TVTropes

At last, the second season of your favorite wind mage's adventures in Equestria is here!

Just as Vaati has fully settled down into his new life in Equestria, the unthinkable happens; Ganon appears and declares his intent to conquer. Now, with the Princesses forced into hiding, the Elements of Harmony scattered all across the land, and races all around Equestria suffering under Ganon's harsh rule, it is now up to Vaati, Twilight, and their friends to join forces with unexpected allies, recover the Elements, and take the fight to Ganon. And all the while, an even greater evil plots from the shadows, enacting a scheme centuries in the making that shall soon encompass two worlds that do not yet know the connection they share...

And as the adventure gets underway, one by one, the Mane Six begin to have nightmares...

Meanwhile, the Cutie Mark Crusaders must combat the darkest depths of madness and twisted illusions if they want to save Scootaloo from falling victim to the evil power that weaves the strings of all their fates...

Rated T for action violence, minor language, mildly suggestive themes, and some scary/disturbing images.

Shaken from watching her friends succumb to Discord's tricks and Chrysalis' deception not long ago, Twilight Sparkle decides that the Elements of Harmony should be more than ready for the next threat, whatever that threat may be. When her eagerness to be prepared yields a grave mistake with consequences reaching farther than the Elements can imagine, all Tartarus breaks loose. It will take finding the truth of the Elements to have any hope in fixing their transgressions, and their friendships. From the littlest filly to the Heavenly Goddesses themselves, everypony's way of life hinges on a group of mares who may not have it all together.

Lyra is a young mare returning to the capital for business instead of pleasure after a falling out with her closest friend. Pressured by all those who love and care for her, she's on a journey of self discovery and ascension. Assigned the task of becoming truly independent and learning how to make her way in the world, the only thing standing in her way is herself. That, and the world falling apart around her.

Cover art by Cold Revenge {Deviantart}

Follow Luna, Rarity, Celestia, Rainbow Dash and many more beloved characters as they are whisked into the shoes of the characters from Halo's The Mona Lisa. After salvaging a dying prisoner from Halo's debris played by Lightning Dust, the Ponies of the UPSC Red Horse are left curious and hungry for answers. Commander Princess Celestia and the AI Discord order Sergeant Luna and a squad of seventeen Ponies to investigate the ship Lightning Dust came from: An abandoned Prison Ship known as The Pony Lisa. So what happened on board The Pony Lisa? Did the Griffins playing the roll of Covenant take her over? Or was it just a prison riot? The answer is far more disturbing than anypony could have imagined. Whilst finding a few survivors on the way, and Luna fighting a separate battle in her head, the dwindling squad must push through a horrific infestation and destroy The Pony Lisa's nav systems to stop the evilest thing in the galaxy from locating colonised worlds.

Hanna, the CEO of Hofvarpnir Studios, just won the contract to write the official My Little Pony MMO. Hanna has built an A.I. Princess Celestia and given her one basic drive: to satisfy everybody's values through friendship and ponies. Princess Celestia will satisfy your values through friendship and ponies, and it will be completely consensual.

Imagine, if you will, that Twilight Sparkle never met Princess Celestia.

Pretty original premise, right?

Well, how about instead of somepony predictable, a different pony took the entrance exam... and passed!

This is about Zecora, a zebra on vacation who stumbled into the wrong room and changed her fate forever.