This story is a sequel to Past Sins

Side-story to Past Sins - Spike almost lost Twilight to a hangmare's noose, but now Twilight is safe and Nyx is a filly again. Normal life is returning. Still, Spike can't ignore the fact that Nyx just isn't the same as he remembers her. Her temper is more volatile, and, when she gets angry, all he can see is the rage-driven Nightmare Moon of legend.

And thus Spike has to wonder: Is Nyx truly reformed, or is she one bad tantrum away from calling herself Nightmare Moon again?

This story is a sequel to Past Sins

Touch, Smell, Taste, Hearing, Sight

This is the order the five senses develop in for foals as they rest, cradled in the warm safety of a mother’s womb. But for one, her womb was a thorn bush in the dark of night. For one, the safety and warmth that should have carried her into the world was replaced with pain and cold.

These are Nyx's first hours.

This story is a sequel to Past Sins

Side-story to Past Sins - Slowly, the wounds inflicted by Nightmare Moon's reign heal. Ponyville is being reconstructed, and the last refugees are leaving the castle. Nyx is with Twilight. Celestia and Luna rule Equestria and guide the sun and moon once more. Everything is as it should be.

But some things are never washed away. These are the things that remain to remind us of the past. They remind us of the good times we've had with friends and family. They never let us forget the mistakes we've made. Everyone has them. Twilight has them. Nyx has them.

And, on occasion, when you share your scars, your photos, and your trinkets with another, they just might share theirs in return.

This story is a sequel to Past Sins

Hearth's Warming is a time for friends and family to come together, celebrate harmony, and welcome the new year. Nyx is looking forward to just this as she rides the train to Canterlot with Spike and Twilight. She's going to meet her extended family for the first time and wants nothing more than to make a good impression. Yet, the sheen of the holidays can't hide the trouble caused by meddling grandparents, relentless reporters, and a paranoid uncle.

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?

It is the year 2038, and the Earth is slowly being consumed by a space-borne monstrosity dubbed the Black Tide, which is using nanotechnology to remake the planet into something hideously alien.

Erin Olsen works for Project Harmonics, humanity's last-ditch effort to find a new world before the Tide can wipe them out. But when that world is found, and it turns out to be occupied, Erin will need to find the courage to face the unknown in order to save the inhabitants of both worlds.

(Many thanks to Easteu for the fantastic cover image for this story!)

Now with its own TV Tropes page

There is now a follow-up to this story: Sunflower - Side Projects
Sequel: Project Sunflower: Harmony

Twilight Sparkle has always loved Celestia—as a friend, and a mentor, and something else as well. And she finally, finally found the courage to admit those feelings.

Celestia turned her down as gently as she could. That's what she thought, anyway.

But the night is still young—and it's a night for being wrong.

[Rated T for suggestive sexual content. This story takes place between the Season 2 and 3 finales. Additionally, I wasn't able to find the artist who did the cover art, if anyone knows please drop me a line so I can credit them.]

After an irritating encounter with Penny, Sheldon retires to his home-away-from-home, his Batcave, his Fortress of Solitude: his office. But the physicist gets more than he bargained for when a strange interdimensional worm hole appears in the Biology department.

Trapped in an unfamiliar, scientifically impossible world. Sheldon has the perfect opportunity to flex his astonishing social skills, or lack thereof. Completely oblivious that the fate of Equestria rests in his hands, Sheldon embarks on a journey of self discovery and love and tolerance... except he doesn't discover anything, and love and tolerance is a waste of time.

Well, maybe he'll learn the value of friendship along the way. But that isn't likely

This story is a sequel to A Twilight Sparkle Story

The story of Twilight Sparkle and her harrowing journey to Fluttershy's cottage, as narrated by the extraordinarily clever and handsome Discord.

Twilight isn't sick. She's perfectly healthy in fact. And yet, something doesn't feel quite right, and it hasn't for weeks now and Pinkie's starting to get worried. Friends make sure friends are alright, don't they?