Liz is a smart girl. She knows what she's doing, with only just enough drive for heroics and exploration to get her into (and out of) trouble. However, no matter how skilled you are you aren't ready for a swarm of unown to rip apart the fabric of reality and throw you into an unusual new world! Thankfully, the natives are understanding and quite helpful.
The issue comes up when her Pokemon team are spread far and wide across Equestria, and don't adapt to their new surroundings quite a readily as their trainer does.

(Pokemon/MLP crossover. Rating of 'Everyone' is pending at this time. If this story proceeds in a way that makes a 'Teen' rating more accurate, I will update it.)

You know what they say once you hit rock bottom...

There are things you just don't say. Some lines you just don't cross, ever. The reason you don't cross them is because of empathy: you know how bad it feels to hear certain things, and you know you wouldn't like it if you heard it yourself. This is a view not shared by everypony.

Diamond Tiara and Silver Spoon crossed the line. Rarity learns of it. Rarity is not amused.

Everypony draws their line in the sand somewhere.

Disclaimer: contains Rarity in a state of barely lucid rage as well as the use of harsh words. Also Cheerilee being as effective as she is in the show, on average. If you do not enjoy episodes like Ponyville Confidential or any other episode where ponies talk harshly to each other, chances are this'll ruffle some feathers.

If this resembles real life situations or anyone you know, this is not the author's intent nor the author's problem.

Added notice 10/12/13: No, not based on any Season 4 storyline or spoilers, it's an old idea. The spoiler just prompted the publishing.

Added 2021 notice: please check the author's notes before commenting, chances are you'll find some answers there.

After decades of conflict, the three pony races have finally united in a new nation: Equestria! Earth ponies Pinkie Pie and Minty decide this is a great opportunity to visit Unicornia and the fabled “Summer Sun Celebration” where the unicorn mages raise the sun for the longest day of the year. Along the way, however, a strange weather phenomenon hurls them (along with their new pegasus friend, Star Catcher) into an unfamiliar landscape. They come to a wondrous city called Canterlot, ruled by a pair of mysterious princesses.

(No time lords were harmed in the making of this temporal paradox.)

This is the story of Chaser, a pony from the distant, wintry village of Snowfall. Growing up as the only pony without a cutie mark is more than embarrassing; as a full grown stallion with a bare flank, he feels ostracized and alone. He decides to leave his home and finally find his destiny in the world. Ending up in Ponyville, he discovers for himself an age old truth—it isn't what people can see on the outside that matters most...

Cover image captured from art by Celebi-Yoshi

After a long day of flight practice with Scootaloo, Rainbow Dash discovers the filly knows next to nothing about preening and takes it upon herself to teach her.

Warning: May Contain Feels and/or D'aww moments.

Featured on FIMFiction on 7/20/2013. Yay!
Featured on EQDaily on 09/12/2013 Double Yay!
Reading by TheLostNarrator (excellent!): Here
Reading by DRWolf: Here
Reading by Joehighlord: Here
Riffed by Draklox: Here
Korean Translation: Here
Spanish Translation: Here
French Translation: Here
Chinese Translation: Here

After thinking over the issue of other ponies in Equestria having severe problems, Fluttershy wished to have a pony to care for and help them live a good life. While it came true, she got her wish in the form of an ambiguous pony who appears to be more timid than herself. But is there more to this pony than Fluttershy could possibly comprehend? Stay tuned for more!

Added the 'Random' Tag because madness.

My Little Pony: Friendship is Magic is copyright of Hasbro
Soul Eater is copyright of Atsushi Okubo/ FUNimation

Cover art belongs to Errick of deviantART

A Metroid Crossover

A meteor, resistant to magical manipulation, crashes in Equestria, Planet Equis, and soon spreads an unknown poison throughout the land. Containment is all but failing and the Princesses have little power to stop the spread of the Great Poison. The Elements of Harmony are of little use as no knowledge exists of this threat that consumes all life. Help comes from a certain Hunter, clad in metal.

Samus Aran will not only fight for her life as always, but her own sanity as well as these ponies that she begrudgingly starts seeing as allies. New horrors and abilities await her as a reason to fight slowly festers within her, possibly unlocking something she had been denied for so long: Friendship.

Notes and Resources:

This takes place after Echoes. The events of Corruption will have not happened yet. In terms of MLP, consider everything up to and including the Crystal Empire. Princess Twilight does not exist here, etc. The official Metroid Timeline can be found here.

As well, this story references the manga in many places. Reading of it is not required and I try my best to explain the context, but if you're interested, both volumes can be found here.

EDIT: This story was written over two and a half years, beginning in 2013. You'll probably notice the difference in writing as the chapters progress.

Away from the glory of Canterlot, a changeling meets a pony.
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Cover image from and inspired by the comic 'Heart Nom' by merrypaws.
http://merrypaws.deviantart.com/art/MLP-Heart-Nom-311709771

Newly married Princess Cadance and Shining Armour return home after their honeymoon happy to be home again and ready to help out around the castle however they can. However, when Cadance discovers a small creature hiding in her room, she has a choice to make. Turn the changeling in to the royal guard or keep it a secret.

Warning: This story is made mostly for Dwaaa'a and will likely hit you in a feel or two.