Set just before the events of chapter ten of Friendship is Optimal. One of the last living humans survives and scrapes by in the ruins of Eugene Oregon. He is approached by a simulacra of Twilight Sparkle, who promptly attempts to convince him to upload himself to Equestria. He balks at first, so Twilight plays to her strengths: studying.

Part of the Optimalverse.

WARNING: RATED TEEN FOR IDEOLOGY. This story attempts to take a realistic and balanced view of why an intelligent and religious person might not upload. It does not attempt to convince the reader to believe any of the viewpoints discussed. However, it is written in as unbiased a way as possible, therefore, both theists and atheists will probably find portions of it offensive.

Set in the universe of Friendship is Optimal.

I love to sit in my apartment and play video games. And I love My Little Pony. So when an MMO of MLP comes out, of course I want to play it. But it's more than a game. It's a new look on life.

Weeks after Rarity undergoes a complete meltdown, Princess Luna suggests she join a club called the "Block Party."

It's not a very fun party.

North of bountiful Equestria and beyond the Crystal Empire lies an icy land of cryptic mystery. Its inner reaches have never been explored, but a Canterlot University expedition is set to change this. The plan is simple: penetrate the unknown depths of the Uncharted North and discover its most hidden secrets.

It's a noble undertaking, but a dark cloud looms on the horizon. Princess Luna's dreams have revealed a great but shadowy threat. To minimise the danger, Princess Celestia requests that her most loyal student, Twilight Sparkle, join the expedition and keep everypony safe. With the aid of her number one assistant, Spike, and mailmare Derpy Hooves, Twilight will attempt to do exactly that.

Cthulhu Mythos crossover, inspired by At the Mountains of Madness by H. P. Lovecraft.

Life in Equestria is changing, and nopony knows this more than Lyra Heartstrings. While on vacation in Appleloosa to forget her past trauma with changelings, the struggling musician ironically stumbles upon Queen Chrysalis. In her starving death throes, the Matriarch of the Hive latches onto Lyra. When the unicorn awakens, she is no longer her usual self, but rather a super-powered pony with all the gifts and talents of the changeling queen who has merged with her, forming a shared consciousness in Lyra's head.

Together, the two will be forced to work out a symbiotic relationship, performing acts of heroism against a shifting tide of questionable politics, dangerous personalities, unpredictable technologies, and the runaway denizens of Tartarus. Neither Chrysalis nor Lyra exclusively, they must both settle for an identity that sparks fear in the minds of evil... and instills hope in the hearts of the innocent.

This is not the story of Queen Chrysalis. Nor is this the story of Ponyville's silly Lyra Heartstrings. This is the day-to-day saga of the pony known only as the Shell, the heroes and villains attached to her, and the adventurous legacy that she will ultimately leave behind.

Cover Art by Rangelost

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!)

Equestria's history is like a swan on a lake, seemingly graceful motion hiding the furious effort beneath the surface. Whose effort? Twilight is about to find out.

An expanded version of an entry in the June 2015 Writeoff Competition. Prompt: A Matter of Perspective
Rated Teen for death, undeath, and mutation without consent.

"Hey, you used to be Celestia's student, right? Did you know Sunset Shimmer?"

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 Eternal Lonely Day

On May 23, 2015, the world ended. It wasn't violent, it wasn't bloody, and it wasn't even very dramatic. The entire population of the planet vanished. But they didn't stay gone; almost at once refugees started trickling back. Unfortunately for them, they didn't come back with their humanity intact.

Instead of a single species, the earth is now populated with Ponies, griffons, dragons, minotaurs, and even stranger creatures. What will the remnants of humanity make with their world? Will they remember human achievements, or slip back into primitive ignorance? Learn from our mistakes, or repeat them over and over?

People haven't really changed, only their bodies have. The world now comes with new threats, supernatural as well as mundane. Demons lurk beneath the sea, while strange spirits whisper promises in dreams. Empires rise, dictators control, and ponies have nowhere to turn for help. Nowhere except themselves, and old-fashioned hard work.

This story is effectively an anthology of episodes, each of which will focus on a different time period and different perspective characters.

Latest in the Last Pony on Earth series. If you haven't read that story, start there. This one won't really make much sense otherwise.

Editing provided by Two Bit and Sparktail. Art by the fantastic Zutcha.