Nightmare Moon has won, and the world has been shrouded in eternal night. But hope still lives. The land of Equestria is currently divided between the armies of the usurper and those of the Dawn Militia. However, the greatest danger to the rebellion may not be the dreaded Mare of the Moon, but her lieutenant, Eclipse–formerly known as Twilight Sparkle.

Bon Bon's voice is funny, and that's about all that anypony who meets her notices, as her marefriend Lyra soon steals the spotlight with her explosive personality, strange obsessions, and curious beliefs. And why not? Bon Bon is, after all, a perfectly ordinary, boring pony in every way but two: her voice, and the carefully kept secret that she isn't really a pony.

(Edit:) Now with an annotated version, courtesy of the incomparable Shoggoth Lord!

SF (canon species only; no humans) Ponies were magically and genetically engineered to be the perfect servitor race. They are powerful, adaptable, intelligent and completely under the control of their creators. A laboratory accident frees one such pony from her mental chains, but how can one mare save herself and the rest of her kind if she doesn't even know she's a slave?
This is not the Equestria you know and these are not your little ponies... not yet, anyway.

Tags: Adventure, Diamond Dogs, Gryphons, NO HUMANS (did I mention that already?)
Other tags: historical, mind control, Clarke's 3rd Law, excessive use of high energy physics, before they were famous.
Detailed review by PaulAsaran.
Cover art by endrome , used with permission.
Russian translation (partial -- 'unofficially' completed in the comments)
A Soot-Covered World, book 1.

Twilight Sparkle prides herself on following and sticking to her plans, but she isn't as organized as everypony thinks. Her master list, the plan for her life, has an item that she has never been able to check off; and the time has come to fix that. How hard can it be? All she needs to do is go on a date and get a kiss.

Now available in hard or soft cover!

Twilight becomes alicorn of the stars. This is sort of a problem, because Luna kind of already was alicorn of the stars. Oops!

TV Tropes

A noble earth-pony family, fallen somewhat on hard times, is killed in a mining accident. They leave behind a single male heir, who is in sore need of a guardian, and of protection. Celestia takes the young pony under her wing and delivers him not to ponies - not earth, unicorn or pegasus - but to a dragon, an ambassador, an old friend of hers.

Playing a game which may just be deadly to the uninformed, the dragon decides that the one path open to him to ensure the safety of his charge and to carry out his sworn duty, is to adopt.

Princess Celestia tires of constantly being surrounded by decorum, deference, and formality, and decides to take a day off from being Princess. But visiting Ponyville incognito is harder than she expects. Will she be able to fit in and make friends without blowing her cover?

My name is Canvas. I remember because I wrote it in the corner of the white box. It takes twelve steps to get from the cot to the wall. And the lights hurt my eyes.

(Note: The story isn't in color because I decided to try this without the gimmick! But I still recommend reading the GDocs version.)

Worgen? Try Ponies as the new Alliance race instead! Deathwing's Cataclysm breaks open the seals separating Equestria from the rest of Azeroth, allowing in the insanity that is World of Warcraft and WoW players.

I also recently got a spin off! Check it out!
"A Day at the Quest Hub" by Braininthejar
http://www.fimfiction.net/story/77999/a-day-at-the-quest-hub

WoP TV tropes page here:
http://tvtropes.org/pmwiki/pmwiki.php/FanFic/WorldOfPonycraft

Prince Blueblood thought the Grand Galloping Gala was over. He thought he could just go to sleep and put it behind him. He never expected to be reliving the same disaster of a day, over and over... and over.

TV tropes page here:
http://tvtropes.org/pmwiki/pmwiki.php/FanFic/TheBestNightEver

Thanks to all the people who wrote the page and all the people who gave me a little wakeup call and comment to become aware of that fact! You can't see it, but you guys put a real smile on my face tonight.

Also, recently, extra thanks to RD Dash for giving TBNE a thorough editing. I've updated the fic accordingly (7.11.12)