Late one night, Twilight receives a letter from an anonymous scientist to work on a top secret project with long-reaching implications. If they succeed, Equestria will be changed forever. But what if the mysterious benefactor has other plans in mind? Twilight has decisions to make: About morality and mortality, love and hate, friends and lovers.

Book two: The Ghost Of You

One by one, Twilight and her friends must come to terms with the consequences of being the Elements of Harmony.

These stories take place in the intervening time between Season One and Season Two,
with the exception of Ditzy Doo: Muffins, which takes place early in Season One.

The series continues in the sequel, Secrets and Lies.

Pony Psychology has a TV Tropes Page.

We all know the royal marriage of Shining Armor and Princess Cadance, but this story goes all the way back to when Cadance was still Twilight's foal sitter. From a simple crush, to young love, and everything in between. A love struck colt, a beautiful princess, and a friend ready to help. The road to love isn't always a simple one, but nothing safe is worth the drive.

Edited by FluttershyisMetal, metroid_freak, Angel_Bunny, and ajvasquezbrony28, four awesome guys willing to help with this story.

This story is a sequel to The Longest Night

As her twenty-first birthday dawns, Twilight Sparkle finds her simple life turned upside down. While her birthright forces itself into her life, Twilight also has to deal with the arrival of three Alicorns. No pony knows where they came from or what they want, and the Alicorns seem intent on keeping themselves and their purposes hidden. To uncover the truth, Twilight will set sail for distant, ancient lands with old and new friends.

Side-Stories: Velvet Sparkle and the Queen in Stone, Myths and Birthrights: Anthologiae, A Dream of Pride and Envy, The Castle Canterlot, by Honey Mead

TVTropes Page

Pre-readers/Editors: Honey Mead, WNA, Cerulean Voice
Cover art by Saint-Juniper

Comments Contain Spoilers

This is the story of the end. This is the story of the death of Equestria. It is the story of the reign of her royal majesty, Princess Twilight Sparkle of the Fading Sun.

The alicorn sisters are dead and Equestria has turned to Twilight Sparkle to guide it. However, just maintaining a dim sun a fraction as bright as her mentor's keeps the new princess near her limits.

Years have passed and Twilight Sparkle is sure of only one thing. Equestria is dying.

NOTE: Written before "It's about Time" in season 2. Everything after "Read it and Weep" was ignored throughout this story.

Luna has had enough of Celestia's games, and has found the perfect means of revenge. Using a long-forbidden spell, she transforms her sister into little more than a small filly, all so she could pull the greatest prank ever. Unfortunately, she soon learns that before you fool around with dangerous magic, you really need to read the fine print...

A sequel can be found here.

WANTED:

The newly crowned Princess Twilight Sparkle has set up a bold new initiative to discover new magic, and is sending out an open call to the unicorns of Equestria to apply for her research team. No experience in magical theory or research necessary. Enthusiasm and out-of-the-box thinking a must. The Equestrian government is not responsible for any physical, emotional, or magical trauma experienced during the course of the project or the application process.

Cover art by Page Turner

Rainbolt never meant to get Firefly pregnant. In fact, he NEVER wanted to have children. Accidents do happen, though, and this one will leave the poor stallion with a sweet, daring, and spunky little filly named Rainbow Dash to raise and care for.

Cover art by the extremely talented High-Roller2108

This story is a sequel to The Empty Room

It is six months after the Fall of the Guardian. The Mane Six and all of Equestria are coping with the losses they have suffered, but the day seems lighter than it was before. Yet unnoticed among the dust of the Fall, a shadow begins again to stir...

A/N This story is set six months after the conclusion of Wanderer D's excellent work "The Empty Room" and I highly recommend it. Constructive criticism, comments, and suggestions are eagerly, eagerly accepted. Hope you enjoy reading as much as I enjoyed writing.

This story is a sequel to The Three Sisters: Extended Family

A story of The Three Sisters Universe

Families are like fudge — mostly sweet with a few nuts. ~ Unknown Author

Chrysalis' daughters are serving their community service in Ponyville. Nothing can go wrong. Right?

Unless they all have their own agenda, and surprises keep piling up, complicating matters further. But anything to broker peace between the Changeling Nation and Equestria... right?

Art by the incomparable Conicer!

Now with a TV Tropes page! Warning: Will Contain spoilers.