A pony wakes up in an empty void and discovers that it is infinitely malleable to her whims and desires.

A loving tribute to pretentious, incomprehensible mind screws.

• Many thanks to AquaGalaxy for the cover art! (Click the image to see it larger.)
• Once you've finished this story, I recommend reading "Applied Starlight: Explained".
• The genre tags are not correct. I'm not really sure what genre this story is, but if I could choose anything I wanted I'd probably go with [Ominous], [Puzzle], and [Parody].
• Featured by Equestria Daily and The Royal Guard.

Everything changes for Twilight Sparkle and her friends when a mysterious extraterrestrial ship crash lands in Equestria. When Twilight messes around in the ship's systems with her magic, she ends up transported to an alien world unlike anything she imagined: a box canyon in the middle of nowhere.

To get home, Twilight must enlist the help of the eccentric Red and Blue soldiers that live there... if she can get them to stop bickering first! Additionally, she finds herself being pursued by the enigmatic military agency known only as Project Freelancer. Back in Equestria, all is not well for Twilight's friends as forces involved with the crashed ship make themselves known. Reds, Blues and ponies will all have to work together to discover the mysterious connection between Equestria and Project Freelancer.

A crossover with Red vs Blue. Written with the intention for the story to be followable without having watched the series. (just don't expect to get all the references).

Now with editors! BradtheBrony and Rough_Draft.

I made a blog post explaining things. You should read it.

TvTropes Page.

In the far reaches of Canterlot Castle, high above in the towers lived the archmage. Everypony knew her, yet few had met her.

Twilight Sparkle sighed, having teleported away another noble seeking favors before reaching the top of the stairs for the second time today. They never learned. As the archmage, she already dealt with political squabbles far too often without inviting them into her home. Aside from personal favors for Celestia, she did what was required of her position and then returned to seclusion and research.

The nobility grumbled that no archmage should be a commoner, and Twilight’s disrespect toward them proved it. Each and every time they were forced to bow to her, they hated what they saw: the position, the status, the deference.

Was she not powerful? Was she not great?

Twilight, now reading through dusty scrolls and long forgotten tales, wrote in her notes — notes gathering dust of their own. A brief thought flashed through her mind.

Am I not powerful? Am I not great?

And then Twilight picked up The Tale of the Royal Pony Sisters.

Defunct side stories told in Across the Boundary. They can still provide a little context, but when in doubt, the main story here is canon.

Cover art provided by Lafiir

Everypony must live with their choices. In Twilight's case, she must live with it forever, literally. Becoming Princess of the Afterlife, of Tartarus, however, was just half for atonement. She had another agenda. She wished to seek out the departed souls of her friends, to beg their forgiveness, just one last time. 10 years have passed and her search is still fruitless.

Now on the 10th anniversary of her friends' passing the true nature of their sacrifice is revealed. She is given the chance to make the choice once again. This time, will she choose Equestria or her dear friends?

Princess Celestia went out for a stroll to a coffee shop. The next morning, she is single-hoofedly destroying the coffee industry.

How?

No really, how?

This story is a sequel to Stardust

Times are changing for Equestria as Twilight’s return brings with it news of people and cultures from beyond the peaceful world everypony knows. Aid and volunteers are freely offered to help the besieged humans of Earth because every Equestrian knows that’s what good friends do. Unfortunately, making friends can also have the unintended consequence of making enemies.

When the monsters besieging the humans strike at Equestria with a level of brutality not seen in over a thousand years, the cry for help is sent to all the kingdoms of the world. Honored allies step forth to fulfill ancient treaties and oaths. Enemies, old and new, bury their grievances. An alliance never before seen in Equestria will be created to combat the monsters from the void.

And because of these events, a grim but welcome sibling to the XCOM project is born.

(XCOM/FiM Crossover)
(Sequel to Stardust, which I recommend reading before starting this. Fortitude Amicitia and Broken aren't required reading but are supplemental to the storyline)
(Gore tag for blood and violence)
(Alternate Universe tag because of the divergence from canon that Stardust has caused)
(Uses elements of Season 4)
(Coverart produced by the amazing Carnelian!)
(Many thanks to Arzoo, BradTheBrony, Vandenbz and Setokaiva for prereading!)
(As of 03/07/2016, the prereading team consists of Arzoo, BradTheBrony, Noble Cause and Metallusionsismagic!)
(Complete with it's own TVTropes page as part of the Stardust continuity. Could use some updating!)
(Character tags will be added as chapters are added!)
(Featured 5/12/2014! Thanks folks!)
(Possible spoilers in the comments! BEWARE!)

This story is a sequel to Siren Song

Bioshock meets MLP in this psychological thriller, where Celestia's new faithful student, Siren Song, must discover the truth behind the city beneath the waves.

Since arriving in Vision, Siren has done things she never thought she was capable of—all in the name of survival. But now she abandons safety to gallop back into the darkness. Determined to do the right thing in a city gone mad, Siren must face the horrors she once fled from. But all is not as it seems in the vast and dark ocean, and Siren’s greatest foe may yet lie within herself.

Book 2 of the Vision series. Sequel to Book 1: Siren Song.

Now with a TV Tropes page!

Featured on Equestria Daily.
Review by PaulAsaran

An Evil Lord learns of a forbidden spell that will destroy the world. Naturally, he intends to cast it.

No problem! Princesses Celestia and Luna will just send Twilight Sparkle to go stop him. That usually does the trick. There's only one catch:

There are only thirty seconds left to stop him before the spell is completed.

Inspired by Half Minute Hero

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!

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.