After the Changeling invasion, Celestia and Luna make the decision to have Twilight investigate the Elements of Harmony and solve the mystery of their power.

A thousand years later, Rainbow Dash awakens in a world she does not recognize. She has no idea how or why she came to be there. She does not know the language, the geography or any of the rules of this new time. She soon finds allies in Star Fall, a scholarly pegasus whose Talent is Magic, and Astrid, Star Fall's Griffin guardian. Together they set out to discover why Dash has been sent to the future, and how she might return to when she belongs.

War threatens the nations, a Nightmare stalks the shadows, and Rainbow Dash's arrival has turned her into a wild card in a deadly game that pits the law on both sides of a broken Equestria against a mysterious criminal figure, Max Cash. Yet the stakes are higher than anyone knows, for in her research Twilight Sparkle discovered a dark secret about the Elements, something that will shake the foundations of the world.

Cover image by SierraEx
Has a TvTropes page

This story is a sequel to The Luna Cypher

Twilight sets out to learn more of the ways of the world, and soon decides that the whole planet is disorganized, insanely dangerous, and desperately needs to be fixed. And she's just the mare to do it... with a little help from her friends.

Also, there are sky-pirates!

Book 3 of the Alicorn Adventure series.

A few extra, slice-o-life chapters are here: On the Rocks

This story is a sequel to The Celestia Code

When the monsters created by the dark crystal engine escape their prison, it's up to Princess Twilight Sparkle to deal with them. She gets help and advice from Princess Luna, but things don't go as planned. In fact, when a pony who relies on logic and rationality tries to navigate the stormy seas of emotional entanglement while simultaneously saving Equestria from a horde of evil creatures intent on destroying everything they encounter, nothing goes as planned.
AUDIOBOOK by VisualPony
WARNING: Major spoilers in the comments.

Book 2 of the Alicorn Adventure series.

Goodreads Page
100% Approved by Twilight's Library!

The Badass Twilight tag applies more than ever, but please note the new tags.

This story is a fairly direct continuation of The Celestia Code. You might be able to follow it without having read The Celestia Code first, but it's better if you do.

The sequel is here: The Twilight Enigma

Most excellent pre-reading/editing done by the erudite AcademicPony and the dapper statoose!

This story is a side story to Crystal's Wishes

On the surface, Velvet Step seems like a pretty straightforward mare. She is in the Canterlot Ballet, the dutiful daughter of Sunbeam and Pepper Ridge, and the very best of friends with Crystal Wishes, her fillyhood friend and current roommate.

However, Velvet has another side to her, one that not even Crystal knows about, and she is keen on keeping it that way.

Princess Twilight Sparkle discovers a centuries-old mystery hidden in the Royal Archives. Her investigation leads through layer after layer of deception and misdirection, setting her hooves on a path that seems to be leading to a mysterious secret. Along the way, she learns that some friendships can be very, very strange.

Book 1 of the Alicorn Adventure series.

AUDIOBOOK by VisualPony
Featured at the Royal Canterlot Library
TV Tropes Page (Courtesy of Sandtalon)
Goodreads Page (Courtesy of Facedeer)
Equestria Daily Page

WARNING: Major spoilers in the comments. Takes place several months after the end of season four. (Not a Da Vinci Code crossover, BTW!)

Do you see a dark tag? No, you don't. Not dark. Well, okay, there are a couple of dark-ish bits, but that's all. Not enough to warrant a tag. Speaking of tags, there really ought to be "Badass Twilight" and "Friendshipping" ones.

Sequels and side-stories (and more) can be found here Offprint and AO3, and a hardbound two-volume set of all that can be ordered from The Ministry of Image.

My editor for the first edition of this story was Gogito, and I can't thank him enough for all the hard work he did. My editor for the revised version was PresentPerfect, and he did a terrific job of getting the story into excellent shape.

The last day of school has all but come and gone. Rainbow and the others have left to prepare the holidays with their families, leaving Sunset all by herself. Ready to spend another Christmas alone, Sunset exits CHS only to be greeted by a familiar face. Someone that comes bearing a gift Sunset never thought she'd receive.

In fact, it might just be the most important gift of Sunset's life.

This story was featured on the front page of FiMFiction on the 25th of December, rising to 1st on the feature box on the 26th of December.

Cover art is done by baekgup

Cover edit (adding the words and editing so it look like a story cover) gifted to me on Christmas by Novel Idea

Edit (26/12/2016): In my haste to get this ready by Christmas, I neglected to mention that Warming A Hearth in Another World by Flutterpriest was one of the inspirations behind this tale. I always try to give credits where they're due but this one slipped through the cracks, sorry!

Everypony enjoys myths and ponytales, even if they know such things aren't real. Alicorns fighting against a spirit of chaos? An ancient princess trapped in a library under a tree, waiting to be found? Quite enchanting and fantastic tales yes, but nonetheless as fictional as Daring Do and other such stories. At least, that's what Rarity used to think.

She doesn't anymore.

Dedicated to Annuska for being as amazing a writer as she is a friend.

Now a physical book!!!
Patreon!
Based on an old oneshot.
Chapter Art by Arctic Waters // Graphic Design and Typography by Swan Song.

This story is a sequel to Crystal's Wishes

Love had finally happened to her. Crystal Wishes married the stallion of her dreams and couldn't be happier with her life... until she discovers why ponies treat military spouses with so much respect. Life after the happily ever after isn't as easy as she hoped it would be when married to a royal guard.

As the centuries pass, cutie marks come and go. Some are common: the healing cross, the basic compass rose, the courier bag. Others are extinct: no more mercenary companies, no more mercenary marks. A few are incredibly scarce, coming along once a generation or less: the mark for luck falls into that category. A number only manifest when the call for them arrives: train tracks didn't appear until it was railroading time. But for the most part, ponies take their mark with its associated talent and magic as a blessing in their lives -- no matter what that mark turns out to be. And they accept it as they accept themselves.

Luna, in her first truly open palace session dealing with the public, is about to meet the exception: Joyous Release, a pony who wants nothing more than to be rid of her mark forever -- and every bit of the talent which comes with it.

But marks are permanent...

(This story takes place shortly after A Total Eclipse Of The Fun.)

Cover art by Harwick.

Part of the Triptych Continuum, which has its own TVTropes page and FIMFiction group. New members and trope edits welcome.

Now with author Patreon and Ko-Fi pages.

When the Cutie Mark Crusaders dig up an ancient magical artifact, they unleash a spell on the town that allows everypony to see a "lie meter" floating above each other's heads. While attempting to solve the mystery, Twilight Sparkle has to analyze the tenuous balance between friendship and honesty. She doesn't like what she finds.

Based on a story idea conceived by theworstwriter
Written and posted with his permission