Princess Luna has opened a new frontier for Equestria and all her citizens on her very own Moon! All are welcome: Those looking for a challenge; those needing a fresh start; those who don't quite fit in.

See across the vastness of the Oceanus Procellarum from the soon to be constructed Serenity Dome! Use your strength and sweat to bring forth a new crop of Lunar produce! Bring your knowledge and ingenuity to bear on the extreme environment of the moon! A place can be found for anypony willing to work together to further spread the glory of Equestria.

See the local recruiting offices in Canterlot, Manehattan, Seaddle, and Los Pegasus today for more details!

--Lunar Recruiting Services Poster; 5 years After Harmony

Snails has a problem - he's been getting headaches, a lot of them, that keep him from sleeping. Trixie is quickly able to identify the problem: He isn't using enough magic, and it's building up. All Snails has to do is use more magic, and the headaches will go away. Of course, the Great and Powerful Trixie is more than willing to train a foal in the use of magic - after all, she's already training Dinky. What's one more?

...wait, why are there seven foals? Help!

A Lunaverse story.

Since the recovery of her crown, Twilight has become obsessed with rediscovering the lost magic which created the 'Portal Mirror': a gateway to another world. On top of that, a former enemy has arrived in Ponyville, looking to make amends.

With her help, Twilight ends up with more than she bargained for when an accident occurs during her studies, touching off an adventure spanning across multiple realities. With a new gateway linked to a myriad of new worlds, what will they find as each expedition brings them one more step removed from the universe they call home?

Editing by SpaceCommie and Prak
Pre-Reading and Contributions by Minifig.
Special Thanks to InsertCoolUserNameHere, who inspired me to start writing!

Trixie has returned to the only life she hasn't failed at, rock farming. When her old rival comes to help her make amends, she's thrust into an adventure she doesn't want to be on, but it may be what she needs to reclaim her confidence as the Great and Powerful Trixie she once was.

It was supposed to be Trixie's vacation, a soul searching trip to Ponyville. Instead she found herself in a town full of crazy, enthralled ponies, the result of Twilight becoming corrupted by a mysterious amulet.

Managing to escape conversion, she set out to form a resistance movement. It's off to a great start. She already has Fluttershy.

(Genre-deviating sequel to Hostile Takeover)

Returning back to his home and job in Ponyville, Time Turner soon finds himself joining Minuette and his friends at an excavation of the ancient Castle of the Royal Pony Sisters. Even his friend Derpy’s daughter Dinky has come along, with the promise of writing a report about for school of course. But when she makes a new imaginary friend, it seems that Time Turner and his friends are going to be discovering more than thousand year old furniture in this castle.

Second story in the "Time Turner Adventures" 'verse and a sequel to Magic Wands and Hourglasses

Fleeing from the Time Lords the Doctor accidentally damages the barrier between his own universe and that of Equestria an event that may lead to disaster for both universe. Now each of his incarnations must visit Equestria to repair the damage.

Each chapter will involve a different incarnation of the Doctor and may be posted out of order.
As the normal category/character rules don't work with an anthology, I'm going to list any extra ones for each chapter below.

Part of RainbowDoubleDash's Lunaverse, my entry for the April Crossover writing contest.

Chapter 1 - The Grandfather
The first incarnation of the Doctor and his granddaughter Susan arrive on Equestria and meet Cheerilee and a group of foals on a trip to Whitetail woods. However, can the escape from the monster lurking there?
Categories - No extra
Characters - The Doctor, Susan, Cheerilee, Snails, Scootaloo, Dinky

Chapter 2 - The Cosmic Hobo
The second Doctor and Jamie find themselves helping to defend an arctic research station from an attack from strange ghostly shapes and Ice ponies.
Categories - No extra
Characters - The Doctor, Jamie, Shining Armour

Chapter 3 - The Gentleman
The third Doctor and Jo arrive at Canterlot in the winter and meet the stage magician Quartermoon the Magnificent and his granddaughter Trixie. There appears to have been a rash of mysterious deaths among the magic profession, with Quartermoon be next?
Categories - No extra
Characters - The Doctor, Jo Grant, Trixie, Quartermoon

Chapter 4 - The Bohemian
The fourth Doctor and Leela become part of the Ponyville weather team and take part in a Pegasus game called Sky Tag along side Raindrops and Dash. But another team are playing for keeps and figures from both Raindrops and Dash's past are taking part as well. Can our hero's win out?
Categories - Comedy, Slice of Life
Characters - The Doctor, Leela, K-9, Raindrops, Rainbow Dash, Hoops, Score, Dumb Bell

Chapter 5 - The Good Sport
The fifth Doctor along with Tegan and Nyssa arrive at Canterlot in time for the final of the first annual servants hoofball league. With the shard as the prize the Doctor is forced to enter but other groups as well as the opposing team are working against him.
Categories - Slice of Life
Characters - The Doctor, Tegan, Nyssa, Night Vision, Pinkie Pie, Blue Blood, Luna, Octavia, Paperweight.

Chapter 6 - The Multi-coloured Man
The sixth incarnation of the Doctor and his companion Evelyn interrupt a dinner party at Fluttershy's resulting in her fleeing into the Everfree Forest. Can Carrot Top and the time travellers find her before something terrible happens?
Categories - Comedy
Characters - The Doctor, Evelyn, Carrot Top, Rarity, Fluttershy, Angel.

Chapter 7 - The Chess Master
Twilight Sparkle thinking the Doctor is a threat to Equestria is traveling through time to stop him at every turn resulting in a much darker future. Can The Doctor and Ditzy Doo stop her and prevent disaster?
Categories - Sad
Characters - The Doctor, Ace, Ditzy Doo, Twilight Sparkle.

Chapter 8 - The Bon Vivant
The eighth Doctor and Izzy have little trouble finding the shard and decide the spend the day wandering Ponyville. But has something followed them from their universe and what sweet creature is waiting to be born beneath Bon Bon's store?
Categories - Dark
Characters - The Doctor, Izzy, Lyra, Bon Bon.

Chapter 8.5 - The Soldier
The time war comes to Equestria.
Categories - Dark, Gore, Sad, Tragedy.
Characters - The Doctor, Trixie, Pokey Pierce, Luna, Shining Armour.

Chapter 9 - The Survivor
Fresh from the Time War the new Doctor is a broken man looking for a reason to carry on after the horrors he witnessed and caused. He finds Equestria in the wake of a Discordian led uprising. Will a meeting with Princess Celestia strengthen him or destroy him totally?
Categories - Dark, Tragedy.
Characters - The Doctor, Celestia, Luna.

Chapter 10 - The Darkness Within
The Tenth Doctor and Martha help a member of the Night Guard prevent an assassination attempt on Princess Luna but is the fate of their ally pre-ordained?
Categories - Sad
Characters - The Doctor, Martha, Luna, Nocturne

Chapter 11 - The Eternal Child
The Eleventh Doctor has settled down in Ponyville for some time to carry out some experiments but when part of his equipment gets away from him it sets in motion a chain of events which results in Greengrass becoming the ruler of Equestria. Can he and Pokey work together to put things back the way they should be?
Categories - No extra
Characters - The Doctor, Pokey, Greengrass, Notary

This story can be read in various orders, the above is in the order that it occurs to the Doctor but not the order it was written or the order events occur on Equestria.

I set myself the goal of never writing two adjacent doctors after each other, which meant that some idea's weren't written until long after they were thought up, particularly the 4th Doctor story was one of the first conceived but one of the last written. The order the story was written in was: -

1st Doctor
6th Doctor
3rd Doctor
8th Doctor
5th Doctor
10th Doctor
2nd Doctor
7th Doctor
4th Doctor
11th Doctor
8.5th Doctor

The order of events on Equestria is a bit more complicated due to time travel. The 7th Doctor story happens at the same time as many of the other chapters as well as other times: -

7th Doctor - c. 20000 BFC (Before the fall of Corona)
9th Doctor - 120 BFC
3rd Doctor - 990 AFC (After the fall of Corona)
2nd Doctor - 995 AFC
1st Doctor - 1000 AFC (Spring)
6th Doctor - 1000 AFC (Spring)
4th Doctor - 1000 AFC (Summer)
8.5th Doctor - 1000 AFC (Summer) (Alternative Universe)
7th Doctor - 1000 AFC (Summer) (Alternative Universe)
8th Doctor - 1000 AFC (Summer)
11th Doctor - 1000 AFC (Summer)
5th Doctor - 3 CR (Celestia's return)
7th Doctor - 18 CR

Trixie appears once more in Ponyville, but something is...off...about her. She isn't speaking in third person. She is convinced that she is supposed to be the Element of Magic, that Celestia is supposed to be the Tyrant Sun, that Luna is supposed to rule as Equestria's monarch - and that Twilight is supposed to be a wanted criminal. Has she gone insane? Or is something bigger beginning - with consequences that Trixie, Twilight, and two entire worlds, can only guess at?

The long-awaited Crisis on Two Equestrias begins at last!

While reading the stories of The Lunaverse can only enhance your reading experience, it is not necessary for this story! It is being written as completely, 100% stand-alone, with no prior knowledge necessary!

Fleeing from some awful fate, Princess Celestia used her magic to send Equestria to another dimension. Once there, along with her faithful ponies, Celestia begins a campaign against the native humans. But all is not as it seems, as Princess Luna soon discovers. Since when did Celestia hate humans? And what exactly were they fleeing from? More importantly, what are these things called Pokemon and how can they threaten the safety of Equestria?

More questions begin to arise as Luna and Twilight dig deeper. Even as the war rages about them, the duo discover a horrible fact. If its true, the very foundation of Equestria will be shaken to the core.

Luna, Twilight and her friends must discover the answer to these questions and do it quickly because the fate of more than one world may lay in the balance.

When the truth is revealed, will it be Celestia who was proved correct? Or will Luna's horrible realization prove it to be exactly what she most fears?

"I have sworn upon the altar of God, eternal hostility against every form of tyranny over the mind of man."
-Thomas Jefferson

Three hundred years ago, Equestria tried to assimilate Earth.
They failed. They fled, rather than face justice.
We moved on. We conquered the stars, we made a civilization that spans across the infinite void. We built true harmony between species.
We thought we'd seen the last of Celestia, but as a desperate mobile colony on the fringes of known space came to discover, we were wrong.

It is time to finish what was started by our forefathers.

Based on TCB: Not Alone, by Starman Ghost.

EDIT: Following Starman Ghost's deleting of Not Alone, I've replaced the above link with one leading to a PDF file uploaded to mediafire.

EDIT (14/04/2014): The character of Evening Star was originally created by Starman Ghost. I am using her without his permission.