(Post-Mass Effect 3)(FemShep)
When the Reapers were defeated, the galaxy believed that Shepard and Anderson were both lost in the final battle. However, the two long-time friends were also known for not letting death stand in their way.

Waking up, in the middle of a desert, on an uncharted planet they both embark on their strangest mission yet. Attempting to find their way back to the Human Alliance, a place called Canterlot may hold the answers they seek. But first, they had to get there while trying not to draw too much attention to themselves.

Too bad for Anderson since massive explosions and collateral damage followed Shepard wherever she went, without fail.

Crossover of My Little Pony and Mass Effect.
Cover image credit goes to: CSImadmax at http://csimadmax.deviantart.com/
Chapters 1 - 6 proofread by: http://www.fimfiction.net/user/GermanDash (Pre-March 2021 update)

In 2185, during his campaign against the Collectors, Commander Shepard discovered a previously unknown species whose origins predated any other race in the modern galaxy. Following a daring rescue from their ancient sanctuary, the Equestrian Herd was brought back into the galaxy where, for the first time in eons, they must walk their own path.

Knowing full well the terrible threat that lingers on the edge of the galaxy, the leader of this newly freed race fights to secure her people’s future while attempting to prepare for the storm on the horizon.

This is her story.
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The long awaited Sequel to Mass Effect 2: The Equestrian Equation This is a reader directed story. Your choices will shape events.
If you favorite, also like! It's one little button click that makes all the difference.

Also, this series has its own TVTropes page now! (Special thanks to user CrowMagnon for setting it up).

Chris and Keon are two zoology majors that get separated from their class after following what Chris believed to be an undiscovered species of bird, during a trip into the Amazon rainforest.

Finding themselves stuck in a pit, they discover an ancient ruin adorned with murals and statues of what they believed to be ponies. They soon realize that the bird in question was the orchestrator of their fate, as they’re brought to what they are certain is their deaths.

Waking up, they are not only separated from each other, but in a new land entirely. Will they take this opportunity to learn about creatures only ever seen in legend, or will they be too busy being studied themselves?

Rated teen for sexual themes, crude humor, mild drug use.
(Edited by DF)

Update: The story is edited into a proper read without many of the horrors I originally put into it. Enjoy the ride!

Deciding he could be given another chance, Luna and Celestia come to an agreement to release the Chaotic God from his rocky imprisonment, locking his powers with a powerful spell. Magicless and with a chance at redemption, Discord's ways seem less chaotic than ever.

He does cause a lot of chaos though, to the faithful student of Celestia, who had eagerly taken over the task of watching over and teaching Discord by giving him a home under her own roof, in the process hoping to learn more about his species, powers and motives but surprisingly learning much more about both himself and her head... Which puts her in pretty amusing situations most of the time.

An adventure of a silly one sided (???) love and a look into the heart of Twilight Sparkle.

Don't expect quality from this fic.

Being a creator means creating your own world, where you pour your love and heart into it.

In a stormy night, after a strange event in her office, Lauren Faust gets teleported into the magical land of Equestria. The land... that she created. What will she do now? How will she return to the reality from her own imagination? Will she even be willing to leave?

What would you do if you've gone where no mare has gone before, and have no idea how to get back?

Rainbow Dash found herself alone in a strange, magicless world governed by entirely different natural laws than Equestria, ruled by a race who thought themselves the only sentient species in the universe...

Brought to you by Loyal2Luna, this new Downloadable Content for Mass Effect 2 brings the fight to Equestria.

Just about ready to embark on their mission to stop the Collectors from further abducting human colonies, Commander Shepard and the crew of the Normandy SR-2 are given a new priority, when the Illusive Man tasks them with investigating the mysterious disappearance of a Cerberus science team.

Soon, what begins as a simple search-and-rescue unveils a mystery millions of years in the making, and the Commander finds himself thrust into a situation he couldn't possibly have prepared himself for.

Join the Hero of the Citadel as he uncovers the secrets, combats the demons, and ultimately decides the fate of the impossible world known as "Equestria."

Twilight and her five friends are transported during a botched spell, across dimensions to... Ponyville, Equestria? But not the same one that they knew. Sitting on a bench is Harpsy and Babar. The Doctoress avoids apples from an aspiring Applebuck. And in a library across town, six stallions join their forces as they try to decipher the appearance of filly look-alikes of themselves around Ponyville!

The year is 2806, and Humanity has long left the loving embrace of their planet. After defeating the fanatical Enlightened, a warmongering alien race who had come to destroy them, many thought that an era of peace and prosperity was to come.

But that was not the case. Earth was lost in the war, and Humanity was divided.

A galactic civil war is raging in the galaxy, and three notorious pirates seeking to leave that life depart on a voyage to find the long-lost homeworld of Humanity: Earth. But complications arise as their destination is far more colourful, and far more occupied than originally expected…

Follow the tale of the Cerberus Pirates, and their struggles on a foreign world with nothing but the technology on their persons and the wreck of their ship to work with. Striving to get back to Mother Earth, and doing whatever it takes to achieve that goal.

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[Gore tag is more of a warning that things get a bit intense, but not to a sickening degree. Merely a word of caution, as it were.]
[The Team: Dumbgamer99 (Slayer), SovietBacon (Yuri), and Shadow Horizons (Drake)]
[Current Beta-Readers (thanks a tonne, you guys!): Rokkurin, PhiliChez]

Celestia and Luna were born as unassuming foals in troubled times. But already marked for greatness, the simple earth ponies stand to face a world set against them, full of danger, fear, and sadness. A world they will change forever.

A sweeping epic taking place before Equestria was made, where Celestia and Luna must rise from normal foals to become the Princesses we know them as, beset from all sides by monsters, other ponies, and even the forces that govern nature. Their tale is as tragic as it is triumphant.

Currently on hiatus. For more info, go here.

(Cover and internal art by Madmax)
(Editing credit predominantly Lightside Luc)