Equus has been overrun by a combination of changelings and hoards of parasprites. Equestria remains the only remaining bright spot left on the planet. Princess Celestia is confronted with a terrible choice. In order to save her little ponies along with many refugees from across Equus, she must sacrifice the population of a world which has done nothing against her.

However the planet that the equestrians find themselves on is not as doomed as they first believed.

a MLP:FIM/ DCU crossover

During her entrance exam, Twilight's powers goes far out of control, leaving Celestia a shell of herself and Equestria in ruins. Now Nightmare Moon is free, but even she can't stop the Tyrant Filly. She flees through time and space, finding herself in an Equestria familiar to us but odd to her. Can the Mane Six help her stop a Twilight out of control?

Fanfiction.net link here!
Weekly featured fic in Authors Helping Authors group

TV Tropes Page, with sincere thanks to DrTempo.

Cover art from here.

Reading an epic tale of one of the Third Hokage's missions, a 6 year old Naruto sets himself on getting some awesome summons of his own. Unable to find a contract on short notice, and not understanding why a contract is required, he goes through the necessary motions anyways and winds up in Equestria. Can Naruto convince the locals to let him be their summoner? Is the ninja world ready for the likes of Pinky Pie? Just how much will a young Naruto benefit from the Magic of Friendship?

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. 

Note- The story isn't that dark.

This story was written with my friend, Godzillawolf. After stumbling upon a homeless Trixie, Twilight tries to help her get a new job in Ponyville. However, an unexpected visitor to the town wants to leave Trixie homeless and feeding off scraps. Checker Monarch is set on ruining everything Trixie does, for reasons not yet explained. Trixie must discover new friends and must face this old danger through new eyes.

What if ponies replaced humans in the Mass Effect universe? Will Commander Sparkle save the day like Shepard did?

Special thanks to vimbert and 108Echoes from Ponychan's /fic/ for proofreading and conceptual ideas.

The GDoc links, if FimFiction does not fancy you. This is both my working copy and the originals that was published on Equestria Daily.

Rock's as solid a unicorn can be without being an earth pony. Then most of a life time growing up in a mine is going to leave a whole bunch of rough edges. Still Rock's always figured that it was pretty good preparation for when the sun went down for the last time ever over a year ago.

Now though she's stuck in a whole other Equestria and there's another unicorn that looks just like her that also lives in Ponyville. Just she's still calling herself Rarity and is far too prissy for her own good.

Soon she's going to meet other ponies in the same predicament, linked in ways they don't yet understand and try to find a way home to the Equestria that they know.

Course first off she's going to have to work out how to get along with herself...

***

Courtesy of an awesome brony Random Elements now has a tropes page : http://tvtropes.org/pmwiki/pmwiki.php/Fanfic/StrykesRandomElements.

This fic was completed in the week between One Bad Apple and Magic Duel, so consider anything before that as having happened for purposes of this fic and everything after as not happening yet, or at all.

Original chapter publish dates:
Chapter 1 - 24th July
Chapter 2 - 29th July
Chapter 3 - 2nd August
Chapter 4 - 8th August
Chapter 5 - 12th August
Chapter 6 - 30th August
Chapter 7 - 1st September
Chapter 8 - 5th September
Chapter 9 - 9th October
Chapter 10 - 5th November
Chapter 11 - 28th November
Epilogue - 28th November

Twilight only became an RA to get the single and avoid her insane ex-roommate while she figured out which major to declare. The plan sounded simple... on paper.

Her RA partner is crazy, the music majors down the hall are probably going to kill each other, the new astronomy professor is her mentor's estranged younger sister, and one of her residents is flirting with her in an extremely distracting manner.

Meanwhile, Rarity's stuck with a bumpkin cowgirl roommate who embodies all the small town “charm” she's spent her life escaping. College was supposed to be her opportunity to start her socialite fashion career and leave all that behind... right?

Trixie Lulamoon, the personal student of Princess Luna, has finally, through a combination of reasoning, pleading, and whining, managed to convince the princess to invest some real responsibility in her, and give her a chance to show off everything she's been learning while under the alicorn's wing. Luna has appointed Trixie to be the official representative of her Night Court to the town of Ponyville, which this year will be hosting the Longest Night Celebration. Trixie is additionally tasked with overseeing the preparations for that festival.

At first, things seem to be going less than swimmingly. The catering is way too many kinds of apples, the weather patrol is far behind, the musical maestro is nowhere to be found, and the decorations could use significant toning down. To top it all off, Trixie can't help but feel that this was less an appointment to a position of real responsibility, and more an informal exile from the Night Court. Still, things could be worse: a mad alicorn goddess of fire and hate could escape from her millennial imprisonment on the sun and try and conquer Equestria.

But what are the chances of that?

A prequel to Boast Busted
Part of the Lunaverse
Now has a TVTropes Page!

Trixie is given the entrance exam for Celestia's School for Gifted Unicorns at the same time as Twilight Sparkle. Rainbow Dash's first sonic rainboom unlocks not only Twilight's own hidden potential, but Trixie's as well. Both Trixie and Twilight Sparkle are taken on as Celestia's personal students. From there they become the best of friends, an inseparable pair.

However they soon learn that time views even the closest friends as nothing more than playthings for its own amusement.

Image belongs to lavosvsbahamut on Deviant Art