This story is a sequel to Rise of the Phoenix Empress

It has been nearly nine hundred years since Sunbeam Sparkle claimed the throne of Equestria after Celestia’s abdication. In that time, she has forged Equestria into a powerful centralized empire that spans most of the known world. Even the distant griffons and zebras pay reluctant homage to the Phoenix Empress.

In this series of connected one-shots, we’ll be taking a look at life the new Equestria Sunbeam Sparkle has forged, through the eyes of its inhabitants.

Study Buddies: Sunset Shimmer and Twilight Sparkle are the Empress’ co-students. They also rather dislike each other, mostly due to Sunset’s less than friendly attitude. Can they find a way to work together to fulfill the Empress’ high expectations, or will they just end up trying to kill each other?

Twilight Sparkle takes a moment from her studies at the School for Gifted Unicorns to get a late lunch. Finding herself in a strange part of the school grounds, an apple tree and its odd fruit tempts her appetite.

Twilight Sparkle has every intention of crawling in to her freshly cleaned bed sheets.

So why is it so hard to get there?

The Cutie Map calls on Twilight and Rarity in order to investigate the town of Hollow Shades, a gloomy village with a fearful populace and an unsettling fixation on dolls. On top of it all, there's a new leader running the show: a mysterious unicorn known as Lady Mari who protects the town in exchange for their servitude.

For some reason Twilight and Rarity can't shake the feeling that they've seen this all before. But that can't be true—this is just another friendship problem, right?

Twilight is summoned by Celestia to discuss both their futures. Will she be able to make a decision that will not only change her life, but possibly affect the fate of all of Equestria? And will she be able to handle the truth when she discovers the true cost of Celestia's and Luna's existence, and how they tie in with the elements of harmony?

A little side story I've had on my mind for quite a while, I hope those who read it find it entertaining. It's not to dark or sad, but enough that I felt the tags were necessary.

Caught in the middle of a struggle between Equestria and a neighboring country, Blueblood finds himself alone in unfriendly territory. Through trials and hardships he finds himself under the wing of a veteran soldier, and the arrogant, spoiled stallion begins a slow metamorphosis into the prince his country needs.

This story is a sequel to The Strange Destiny of Prince Blueblood

Following the events of "The Strange Destiny of Prince Blueblood," our semi-hero's life has been flipped and turned upside down. Despite his attempts to start over fresh, however, his past—both recent and distant—keeps coming back to haunt him and the ponies he cares about.

Trixie Lulamoon is causing trouble in Ponyville once again, in more ways than one. As somepony who would like to be Trixie's friend, and who doesn't want to push the problem onto somepony else, Twilight Sparkle agrees to help.

The now-famous first story of the Lunaverse!

This is the story of Trixie, the Element of Magic and the personal student of Princess Luna. It has been some months since this unicorn moved to Ponyville to learn about the magic of friendship, and, more specifically, how to not let her abrasive personality drive away the friends she does make. So far, she has succeeded, becoming a welcome part of Ponyville life, and as such has decided to put on a magic show for Ponyville during the Eventime festival, the celebration of the spring equinox.

However, a certain purple-coated unicorn seems determined to ruin her fun, and everypony elses'. This unicorn has traveled far to learn as much about magic as she can, and was excited to learn at the hooves of the Element of Magic herself. What she finds in Ponyville, however, leaves this purple-coated unicorn...disappointed. She resolves to take drastic steps to show Trixie what real magic is all about!

...this could end poorly.

Now has A TVTropes Page!

Two years after Nyx was stripped of the Nightmare's power, Twilight Sparkle is attempting to raise Nyx as a normal filly. But as Nyx's magical abilities begin to grow out of her control, the pair quickly earn the attention and ire of some powerful ponies who do not have Nyx's best interests in-mind.

During the night, the Elements of Harmony mysteriously vanish, and Princess Celestia enlists the aid of their bearers to find them. Twilight is forced to choose between her duties to her princess and her duties to her daughter. In the process, she discovers a web of conspiracy surrounding her daughter that reaches back a thousand years into Equestrian history. Will Twilight be prepared to face the things she learns along her journey's path: about Nyx, about Celestia, about Equestria, about the Elements...

...about herself?

Based on Past Sins by Pen Stroke Pony.
Alternate universe, because Twilight never became an alicorn or princess in this story.