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After the Changeling invasion, Celestia and Luna make the decision to have Twilight investigate the Elements of Harmony and solve the mystery of their power.

A thousand years later, Rainbow Dash awakens in a world she does not recognize. She has no idea how or why she came to be there. She does not know the language, the geography or any of the rules of this new time. She soon finds allies in Star Fall, a scholarly pegasus whose Talent is Magic, and Astrid, Star Fall's Griffin guardian. Together they set out to discover why Dash has been sent to the future, and how she might return to when she belongs.

War threatens the nations, a Nightmare stalks the shadows, and Rainbow Dash's arrival has turned her into a wild card in a deadly game that pits the law on both sides of a broken Equestria against a mysterious criminal figure, Max Cash. Yet the stakes are higher than anyone knows, for in her research Twilight Sparkle discovered a dark secret about the Elements, something that will shake the foundations of the world.

Cover image by SierraEx
Has a TvTropes page

Chapters (39)
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Warnings: Sporadic updates, long/plodding, backstory shipping

When Spike went to bed, he was a 162 year old dragon, war veteran, twice widower, and living on the outskirts of Ponyville. This morning, he wakes up to a voice he hadn't heard in decades on the eve of the 1000th Summer Sun Celebration.

Now, Spike must choose between the future he knows and a future he can make.

Chapters (11)
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This is the first book of The Humanity Within Trilogy. Its sequel is What I've Done.

I wasn't always like this, a monster, running through the woods on an alien planet. I was once a man. I had dreams, a girlfriend, and a great job.
Then They came. In the middle of the night, They scooped me from my home, and... changed me.

Now I'm a beast, a demon the like of which the world I've become stranded on has never seen before, scraping by on the fringes of society, hiding from the natives, and doing my best to avoid notice.

After all, who could ever be friends with a monster?

Cover Image done by the very talented PaintSplotch! You can find his FimFic account here.
And here is his DeviantArt Account!
Now 100% approved by Twilight's Library!
Mad props to my prereaders:
ThatPonyWithASword.
Admiral Applejack.
JXWheeler

Chapters (15)
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Once a year, the Townsend occurs. It is a weeklong tradition held by all of Equestria where, for a full week, everypony falls into a very deep -- almost comatose -- state. Nopony knows why or how it happens. It just does. So far, nopony has found any consequences to this strange occurence.

Then, one year, ponies start to go missing.

Then, the next year, more ponies start to go missing. Every year after, some ponies just seem to poof, and are never seen again. Nopony knows what happens to them, and those who try to learn, disappear.

Jazz is a very regular pony. In fact, there's nothing special about her at all. She has many good friends, a crush, even a well-respected family. She lives an average life in the little town of Stableside. That is, until she is unable to fall asleep the night of the Townsend.

This starts a series of events that will shatter Equestria forever.

Follow Jazz, as she embarks on the journey of her life. Just what secrets do the Townsend hold?

For everything you are worth, hide.

Chapters (4)
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On behalf of the Canterlot University of Electrical Engineering, Princess Celestia sends her star pupil a mysterious contraption she wants her to take for "beta testing".

A mysterious, new invention dubbed the "Xbox 360".

Shenanigans and hilarity will ensue.

Link to TVTropes page: http://tvtropes.org/pmwiki/pmwiki.php/Fanfic/TheElementsOfGaming
Link to story on EqD: http://www.equestriadaily.com/2011/07/story-elements-of-gaming.html

Chapters (12)
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Source

Equestria is dying.

There is nothing anyone can do about this.

The sun has shined too long. The Age of Sunlight must come to an end. But Celestia refuses to let it extinguish, and the land is shrouded in everlasting dusk. And now, among the living, are seen bearers of the accursed Darksign. Those doomed to die, again and again, until their minds fade away and they turn hollow, forever seeking the souls of others for nourishment, in a futile attempt to regain their lost memories and lives. But there is now only one way for their suffering to end. Celestia must be slain, so that the Age of Dark may take its natural turn.

Co-created by Akumokagetsu

Cover art from PonyChaos13 on DeviantArt

'Dark Souls' crossover.

Chapters (8)
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In Equestria, humans serve the ruling pony class. Their lack of magic makes it near impossible to survive on their own, and so they depend on their rulers to protect and help them, and put a roof over their heads. But on Earth, and in many other solar systems, their strength is the pinnacle of hope, as they assist those they can in their frantic search for the ones who came before.

Near the edge of the humans' empire, The USSF Monarch stumbles upon Pony kind on Tango 126, one of the many targets during their hunt for the Precursors. Their curiosity is peaked, and John Punch, a high ranking Elite, is sent in disguised as one of the many Human occupants on the planet, to learn of their culture, and the Precursors' presence on this planet.

Now the respected veteran must face the social challenges of being thrust into a gender reversed, pony dominated society.

Chapters (7)
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January 15th, 2014. A veil of light spans across the United States of America. As the citizens stare in amazement at what is certainly a once in a lifetime phenomenon, the entire country is ripped physically out of its place on Earth and sent to a new world, a world known as Equus. Now with 312 million Humans and their country trapped in completely unknown territory with no way home, they must do what Humanity has done for centuries that has allowed it to become a force of nature. Adapt, Survive, and Overcome.

Editor/Adviser: Sneaky Breeze.
Editors: Washingtonian & AlphaFartOfDoom
Technical Adviser: ArtichokeLust
A big thanks to them for all the input and help they have given.

Chapters (2)
T

"The arrogance of our kind is thinking nature is in our control, and not the other way around." ~Serizawa

When a foreign country far to the east, long since isolated from the rest of the world, reaches out to Equestria with a desperate plea for help, It’s up to Twilight and friends to save the day.
Yet things will be far from simple. They will find themselves thrust into a strange new land under siege by a terrible foe, pitting them in a race against time to stop a titanic force of nature before it crushes them all in its relentless path of destruction.

Chapters (11)
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That's right, the Joker, otherwise known as the Clown Prince of Crime, the Harlequin of Hate, and the White Duke of Death, is now in Equestria. Will this unpredictable, murderous psychopath learn the true magic of friendship and abandon his old malicious ways? Or will his arrival kick off an unstoppable crime spree to shape Equestria into his own image? Like I said, the Joker is unpredictable.

Special thanks to my awesome prereaders X19, LDSocrates and The Alpha, who are the best of the best! Read their stuff or just thank them for reading my unedited monstrosity before I release it to you guys!

Now on TV Tropes because of the greatness that is Shadow Sora94. Give him some thanks!

Chapters (14)