This story is a sequel to Scion of Chaos

Five years after the summer in which the three had gotten their cutie marks, Scootaloo, Sweetie Belle and Apple Bloom, now young mares in their own right, decide to go on a quick summer vacation, all as an attempt by Sweetie Belle to cheer up a sad friend. However, the trip turns out to be more than they had anticipated.

Set five years after Scion of Chaos and An Emerald Treasure. For the sake of context I'd recommend reading both of those first.

Special thanks to Mac349 and Plebeian for proofreading. Thanks to CMC4TW for editing/idea-mulling.

When Twilight Sparkle slipped beneath the covers last night, everything had been fine. She had friends whom she loved, a teacher she adored, and a bright future ahead of her. But when she woke up, her blankets and quilts had been replaced by hospital gowns and padded restraints.

Everything is wrong and nothing makes sense; even her friends have changed. The doctors keep telling her that she is sick, that none of it was real and that it was all in her head. Yet she remembers a life far beyond the hospital walls. She couldn't have made it all up on her own. They must be lying… right?

Ask Asylum Twilight - Still updating regularly!
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Art:
Asylum Cover by conicer
Twilight and Twilight Smiles by dreamingnoctis
Mirror Twilight and Plague Doctor by Jaestring / BloodGoldWings
Twilight Smiles and Doctor AJ by conicer
Nurse Ratchet and Silas and What's in the mirror? by Archonix
Doctor AJ Sketch by Archonix | Colored and vectored version by ReFro82
Twilight's Asylum by Khan the Cake Lover
Smilight by HappySwitch
Twilight Waking Up by Dombrus
Fan Art by toxicdemon10
Asylum Twilight by Madness-With-Reason
Asylum Fluttershy and Asylum Ch 26 by Downburst-Backspace
Twilight and her Twin by v747
Birdgirl by sirValter

Readings and Videos:
Asylum Animated Trailer Video by formuladash
Reading by Gammarobot (SugarCubeRadio): All Chapters Here
Reading by Ender Brony: All Chapters Here
Reading by VisualPony: All Chapters Here
Reading by MelancholyIguana: All Chapters Here
Fan Trailer by Kaidan: Asylum FanFic Trailer Cuckoo's Nest

Sanctuary by Kaidan
Broadhoof Files: Dr. Humors by TypewriterError
Broadhoof Files: Corporal Phalanx Spear (Ret.) by Phalanx Spear
A Hearth's Warming Tragedy by Seven Fates

A special thanks to Breath of Plagues, Rex Ivan,
ChudoJogurt, Cynewulf, Death the Kid, Selbi, PrinceDolph, Blahman2816, Queue, and Gage!

Axan Zenith - Dr. Dreamer
Dratini4 - Way Finder
psychicscubadiver - Bright Mind
Velkaden - Dream Chaser
Reese - Silver Glow
Viola Heartstrings - Clover
Archonix - Spinney Whiteacre

Canterlot... For centuries, Canterlot was the shining gem of Equestria, the pinnacle of pony society. Now, it’s a reminder, a bleak and monolithic warning to the world. 

Changed by the chemical and technological poisons that plague the mountain, an abomination of nature, I wander the greatest disaster Equestria has ever seen. 

... I will escape eventually, and when I do, I hope my friends still see me as Twilight Sparkle, and not the monster that hides among the ruins. 

After GLaDOS is uploaded into a potato battery, Wheatley humiliates the AI even further by uploading her into a project that was abandoned by Aperture a long time ago. In the blink of an eye, she finds herself in a deformed body of flesh and bone that resembles an equine, and is just as powerless as one too. It comes with all of its needs and bodily functions as well. To make matters worse, she's trapped in a land full of insufferable creatures that just want to make 'friends.' Will GLaDOS' cold, sadistic sense of humor and morals get the better of the ponies? Or will they peel away the once artificial being's metallic shell and find that there's a softer side? Probably not, but it's worth a try.

Story Theme: Tyler Bates - I Love You (Watchmen OST)

Thanks to Meeester, MrJoshy, and funkyferret for proofreading/reviewing.

Cover by Fedte16.

Principal Celestia is sick of punishing Screwball and not seeing any improvement in her chaotic behavior. So she tries a different approach by enrolling her in the school's "Big Sister" program, hoping it will teach her some general morals. (No spoilers of who she's paired up with here.)

My first attempt at an Equestria Girls fic. Rated Teen for swearing and some sexual humor.

NOT CANON WITH MY OTHER SCREWBALL STORY!
I don't own the cover art!

A thousand years ago, Princess Celestia banished her sister to the moon, that much we know. What wasn’t known, and what Celestia kept secret was that before her banishment, Luna had given birth to a foal. Now a thousand years later, as Nightmare returns to Equestria to bring about Eternal Night.

Twilight Sparkle, protege of Princess Celestia, struggles against the tyranny of this ancient foe. But how will she be able to save herself and her friends when the truth of this ancient legend crashes down upon her? Twilight will have to confront herself...and her heritage.

Polaris501

After years of hiding in the Everfree forest, Fluttershy emerges to a very different Ponyville. It seems as though everypony is gone. She knows only one thing, Discord has been living in her cottage, and he and Angel Bunny are all shes got now that everypony seems to have vanished from Ponyville.

This is a universe where after Twilight and friends gave up the elements, Discord took advantage of it, and everypony was forced to leave Ponyville. Fluttershy blamed herself for the incident and blocked it from her memory. She now returns to Ponyville and must pick up the pieces.

This story is a sequel to My Little Caboose: Blue is Magic!

It has been one month since the Elements of Harmony were used to trap Discord again, and it has been one month since Twilight lost one of her closest friends, the only consolation of which being that Church was finally getting some well deserved rest. At least, that is what she and the others believed. Discord, still trapped within Church's mind, has been picking away at his sanity the entire time, messing with his memories, making him forget what was real and forcing him to remember what wasn't. When he finally escapes, will Church be able to distinguish between reality and the memories Discord tampered with, or will his slim grip on reality finally give out?

If the ponies he is led to believe are his friends are of any indication, probably the latter.

[Before asking questions in the comments, please read!]
- This is a sequel to the completely unjustifiably popular, My Little Caboose: Blue is Magic!
- You probably will be extremely confused if you have not read that before this.
- You probably would be even MORE confused if you have never heard of Caboose.
- Click here to watch the series if you have not.
- FAQ

While pursuing a splinter of Hive Fleet Behemoth, Captain Sicarius and the Ultramarines 2nd company are caught in a warp storm that carries them and their prey to an unknown planet. Meanwhile, Princess Luna notices something strange in space that could spell danger for all of Equestria. Swept up in a war between the terrifying Tyranid swarm and the vengeful Ultramarines, the ponies must fight for their lives in a war that spans a galaxy.

Thanks to thirdstring_overlord and GiftedMonster for proofreading my newer chapters. thirdstring_overlord also writes an excellent 40k crossover that needs some fans. Go check it out!

Disclaimer: I do not own My Little Pony: Friendship is Magic and Warhammer 40k. They are the properties of their respective owners.

Everything changes for Twilight Sparkle and her friends when a mysterious extraterrestrial ship crash lands in Equestria. When Twilight messes around in the ship's systems with her magic, she ends up transported to an alien world unlike anything she imagined: a box canyon in the middle of nowhere.

To get home, Twilight must enlist the help of the eccentric Red and Blue soldiers that live there... if she can get them to stop bickering first! Additionally, she finds herself being pursued by the enigmatic military agency known only as Project Freelancer. Back in Equestria, all is not well for Twilight's friends as forces involved with the crashed ship make themselves known. Reds, Blues and ponies will all have to work together to discover the mysterious connection between Equestria and Project Freelancer.

A crossover with Red vs Blue. Written with the intention for the story to be followable without having watched the series. (just don't expect to get all the references).

Now with editors! BradtheBrony and Rough_Draft.

I made a blog post explaining things. You should read it.

TvTropes Page.