This story is a sequel to The God Empress of Ponykind

A message rings through the Warp: "The Game is broken, only Destruction remains". Celestia hears it, fearing for the lives of her former subjects and those of her beloved ponies. Unwilling to sit idle, she has chosen a dangerous path: return to the Imperium, take up the mantle of Emperor of Mankind, defeat the coming storm, and save Mankind once and for all.

With Twilight Sparkle to aid her, Celestia faces new challenges and new enemies. Her forces are scattered, her people assaulted, and the enemies of Man grow stronger with each passing day.

The Time of Heroes is gone. Now comes the Time of Ending.

Sequel to God Empress of Ponykind. Reading that first is strongly recommended.
Rated T for 40K related violence, but that might change at some point.
Comments contain spoilers. You have been warned.

[Featured on EQD 21/4/2014] [Now on TVTropes]

When Luna gifts Twilight the town of Ponyville and its surrounding countryside as her demesne she's initially confused. Then, after double checking her dictionary, more than a little concerned.

All her friends are, legally, her possessions. The town that took her in is her plaything, if she so wishes. She has been given responsibility.

Can Twilight's vision for a modern renaissance outrun the harsh realities of the shadowy figures pulling strings behind the scenes, nobles jockeying for her attention, and an irritatingly metaphorical love triangle?

Special thanks to the insatiable Blue_Paladin42, the incorrigible Maskedferret, the intuitive Southpaw and the indestructible newbiedoodle for all their hard work, past, present and future.

Isolated from her friends and taken prisoner in the middle of a war, Twilight must deal with the very real dangers of being percieved as an enemy as well as the nightmares of her arrival on 'Earth'. Can she overcome her own fears and the fears of her captors? Will the wayward unicorn's assistance be a boon or a curse to the 'humans?' Most importantly, will she ever find her way home?

"In short, it's a story of friendship and plasma rifles, with the emphasis on the friendship. The characters are well written, the XCOM setting is fleshed out very well, and the story is compelling. If you love XCOM, you'll love the story, but even if you've never heard of it, it's more than worth giving the first 3 chapters a read.

There's excellent action later on, but the real strength lies in the collision between the friendly and naive world of Twilight Sparkle and the desperate world of humans fighting a losing war for survival and willing to do anything to turn the tide."

--Arzoo

(XCOM/FiM crossover)
(Cover art commissioned by a friend and created by the magnificent FoxInShadow!)
(Original cover art by the amazing Carnelian can be viewed here!)
(Gore tag for blood and some violence)
(Many thanks to the studius OminousTen, Arzoo, xXFluttershyForeverXx and finally Setokaiva for giving my rambles a once-over)
(Now with it's own TV Tropes page! Get to tropin' folks!)

What if the villains were allowed to win without a fight? Would all of their plans bear them the fruits they so desired?
Probably not, especially when their royal adviser is Twilight Sparkle.

A collection of (continuous) One-shots in which our heroes don't have any epic fights with villains, and simply allow the power of logic to crush all of the hopes and wishes of the would-be rulers of Equestria.

Currently up: Nightmare Moon, Discord, Chrysalis, Sombra (bonus chapter - the fight is so not-epic it happens off screen).

In response to threats of a griffon attack on Equestria, Twilight responds with a letter detailing just why such actions would prove unfavorable for them.

Twilight is invited to Canterlot to compete with some of the greatest magicians in the world for the Moonstone Cup, a prestigious award for the most powerful and skillful magicians, unicorn and otherwise. Can she win? What sort of competition will she face?

Awesome cover image was taken from NoOneBahtim

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!
Equestria Daily
TVTropes
Asylum Fan Group
The Tartarus Project
Russian Translation
The Asylum 20,000 View Spectacular Stage Show!

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

This story is a sequel to Stardust

Times are changing for Equestria as Twilight’s return brings with it news of people and cultures from beyond the peaceful world everypony knows. Aid and volunteers are freely offered to help the besieged humans of Earth because every Equestrian knows that’s what good friends do. Unfortunately, making friends can also have the unintended consequence of making enemies.

When the monsters besieging the humans strike at Equestria with a level of brutality not seen in over a thousand years, the cry for help is sent to all the kingdoms of the world. Honored allies step forth to fulfill ancient treaties and oaths. Enemies, old and new, bury their grievances. An alliance never before seen in Equestria will be created to combat the monsters from the void.

And because of these events, a grim but welcome sibling to the XCOM project is born.

(XCOM/FiM Crossover)
(Sequel to Stardust, which I recommend reading before starting this. Fortitude Amicitia and Broken aren't required reading but are supplemental to the storyline)
(Gore tag for blood and violence)
(Alternate Universe tag because of the divergence from canon that Stardust has caused)
(Uses elements of Season 4)
(Coverart produced by the amazing Carnelian!)
(Many thanks to Arzoo, BradTheBrony, Vandenbz and Setokaiva for prereading!)
(As of 03/07/2016, the prereading team consists of Arzoo, BradTheBrony, Noble Cause and Metallusionsismagic!)
(Complete with it's own TVTropes page as part of the Stardust continuity. Could use some updating!)
(Character tags will be added as chapters are added!)
(Featured 5/12/2014! Thanks folks!)
(Possible spoilers in the comments! BEWARE!)

Kratos...the Ghost of Sparta...

Under the domination of Ares, the God of War, he committed horrid atrocities, including the slaughter of his own wife and daughter...

Visions of what he had done would haunt him all his days...until it brought his days - and his world - to an end...

At least, that's what the fates have decreed await him and Olympus.

But Fate changes sometimes. Some things can't be predicted, even by gods. And this time around, one of those things has found her way to Kratos at the very beginning of his Nightmares.
---
Part of the PWNY-verse.

Edit: New Cover Art by Sanyo21!
Edit: New Fan Art by ArkKane!

This story is a sequel to For Queen and Country

Twilight Sparkle always had a feeling that ponies were not alone in the universe. When he arrived in Equestria, she was proven right.

After he uncovered and subsequently overthrew a plot to kill the two princesses, they sent him back to his world. However, the curiosity of Princess Celestia was still unsatisfied. She had a glimpse of this other world through the mind of this one man, this agent of a service known as 'MI6', but wanted to know more. To this end, she resolved to send her former student there, in an effort to understand more of the human race and, perhaps, meet their mutual friend once again.

Who was this friend, you ask?

Bond. James Bond.