Part 1 of the Shadow Trilogy

As Twilight Sparkle enters her third year amongst her friends in Ponyville, she finds herself plagued with strange dreams of an unknown power whispering dark secrets to her. The voices speak of Power, of the strength to protect what she holds most dear, of the great knowledge she could attain, such that no force could ever threaten her lands, or her friends, ever again.

Though she shrinks from this voice, the lure of greater knowledge, of magical power far beyond what she currently knows is enticing and alluring to her, eating away at her resolve even as the lack of rest begins to wear her physical defenses down.

What is this voice, and what does it plan for the most faithful student in Equestria?

Note: Events diverge from canon following the events of "Games Ponies Play"

Part 2 - The Twilight Fall
Part 3 - The Twilight War
Links removed in compliance with Fimfiction policies

Fluttershy is fine. Really, she is. Sure, she was a magically created fruit-sucking vampire hybrid a week ago, but now she’s fine. She’s seen a pair of fangs in the mirror now and then, but she’s fine. She drools at the thought of apples, but she’s fine. Nothing to worry her friends about.

It’s not like she has a problem or anything.

Everything. Is. Fine.

On a dark night filled with even darker magics, an insane cult attempts to give Nightmare Moon a body and life of her own, utterly separate from Princess Luna. But, when the spell is interrupted by Celestia, something unexpected is created.

Now, a little black alicorn filly named Nyx finds herself living under the care of Twilight Sparkle, only to be haunted by memories and emotions from her past. Is she Nightmare Moon reborn or is she simply a doppelganger with a soul and mind of her own? Can Twilight Sparkle protect Nyx from those who refuse to see past her dragon eyes and black coat?

Or, will Nyx be forced to inherit the sins that may not even be hers and become the greatest evil Equestria has ever known?

This story is a sequel to Into The Depths

The horrors of the catacombs have turned to distant memories for Celestia, Twilight, and Luna. Discord’s change of heart and Twilight’s coronation have helped to ease and erase the mental scars from that harrowing night. The three princesses can even smile and laugh as Nightmare Night moves into full swing.

Yet, it should never be forgotten that those who have been touched by Tirek are forever within his grasp.

Play this song first!

Twilight Sparkle has always been looking forward to her 21st birthday. It's the day that she's finally recognized as an adult mare, but also the day she's finally able to learn magic on the highest level. What should have been a great day though, turns out to be the most horrific day in her life. She finds a prophesy talking about the next great evil in Equestria, and it's HER! Now she's falling, slowly becoming the very evil she swore to fight against, and not even her closest friends can pick her up in time. In the end, she may even...

Apple Bloom is tired of being the last in her class to not have her Cutie Mark, but her friends Sweetie Belle and Scootaloo aren't going in the right direction to get their Cutie Marks, and she knows it. In order to get her Cutie Mark the right way, Apple Bloom begins to have thoughts of separating from her friends, and getting her Cutie Mark on her own. But her search for her Cutie Mark opens up to a major mystery in Equestria, and Apple Bloom will discover much more than just her special talent...

friends become enemies...

destinies are revealed...

light fades into the darkness...

and through it all, a hero is born...

This is the first main story in the series.

New cover art by my friend The Spectralist.

Link to the TV Tropes page!

An unexpected encounter with a stallion helps Fluttershy feel better about a personal problem... And then hilarity ensues.

There is now an Interquel in progress, taking place between chapters 3 and 4. And there is a sequel planned.

Twilight Sparkle never was a Unicorn and she didn't even know it.
What happens when her true heritage comes to light? Will she willingly embrace it? Or will she be forced to?

Beware of spoilers in the comments!

Edited by uTTerAbsurdity, Zervziel, Stormwatch and Gwenio

Cover art by the talented Cartoonlion and colored by the equally talented Stormwatch, original can be found here

Click here for the Tvtropes page

After the changelings' failed invasion of Canterlot, Twilight tries to soothe some of Ponyville's rampant paranoia by casting a spell to prove there are no imposters hiding in the town. But her spell leaves her in an alien body, facing a mob of angry ponies who just don't believe her when she says she is Twilight Sparkle.

Or, at least, she was Twilight Sparkle, anyway...

Featured on Equestria Daily, 2/17/13
Cover art is by the awesome and amazing Conicer

Years have past since the changelings were driven away from Equestria, giving room for peace and love. Suddenly, Twilight is captured in the middle of the night, and is brought to the hooves of Queen Chrysalis. Seeing that she has captured the element of magic, she is determined to gain her revenge against both Twilight and anyone that has ever wronged her.

Using her dark magic, the queen transforms the unicorn into a horrifying creature. Will Twilight hold on to her sanity, and more importantly, her devotion to friends?

Or will she slip into the darkness, and lose all hope.

Props to chaos2012 for bringing me this idea. The story is mine though

Evilpresident is also onboard as a Pre-reader.

Okay, new cover art! This time it was actually made for the fic, so credit goes to BronyInvestigator
I cannot thank him enough.

This story is a sequel to Veil of Thoughts

After surviving a spell that merged Twilight and Dash into a single being during the story Veil of Thoughts, the two mares are still struggling to get back to as normal a life as they can have. Except, didn’t they used to have more friends? Why is it so hard to remember…

The boundaries of reality are starting to crumble apart. Half dreams haunt their waking world. Memories of another life seep through their mind. What they were is quickly becoming little more than Fragments of Memories.

Friends, family and even enemies will come together to save Twilight Dash before it’s too late and there is nothing left to save.

The long awaited, highly anticipated, sequel to Veil of Thoughts. Don't forget to remember.