The Daleks invade Equestria, but the combined power of the Doctor and the Princesses was enough to dispose of the ship and it's monstrous crew... that is, except one. Dalek Sar disgraced himself, and as punishment had his self-destruct disabled, had his connections to the rest of his race cut, and was stripped of many of his armor's powers. The fallen cultist of Skaro was then left to die, facing the Doctor head on while the others remained safe on the ship.
Never have they been so wrong. Alone and powerless Dalek Sar is captured, and then taken in by a small, cowardly, pegasus to live at her animal home. Through events no one could explain, he has made Fluttershy his eternal commander. And him, her eternal protector.
But when Celestia needs to have Fluttershy reform another powerful monstrosity. Discord, the spirit of chaos. We've all seen how Discord wrecks her home, pushes her to the limit... but what would her own alien death machine have to say about it?
Based on the terrible beginning to one of my other stories, Vortexes are Magic (it gets a lot better later on), but it'll play out very different. Warning, may(I'm undecided) contain lethal levels of Fluttermac in later chapters.

Late one night, Rainbow Dash is rudely awoken when a mysterious object plows through her house and crashes near Twilight's library. Inside it is an equally mysterious stallion that seems more than a little different in character to the ponies that find him. But when strange apparitions start appearing in Ponyville following this event, this stallion might be just the fellow to have on hoof.

How do you think weather is controlled? Pegasi moving clouds? Unicorns altering the changing of weather in their midst? Maybe, of the skew of different occupations. But how did it start? What caused bright droughts and gray downpours? It may be farther back than you think. For three titans, of the land, of the sea, and of the sky. The former of all three had created the land to begin with. Using its force to drought the land and raise massive continents, while its counterpart created downpours and put roaring oceans into bloom.

Now, normally, this causes contradiction. And where there is contradiction, there is fighting. The two couldn't settle their quarrels and several millenniums ago, engaged in a brutal fight to the death. However, the final titan, the being of the sky, resolved their qualm, sending the beast of the sea to the darkest depths of the deepest ocean, and the beast of the earth into the pit of the largest volcano.

Now, it is the time under Princess Celestia and Luna's dual-rule, and Twilight Sparkle is preparing important events as it is the week-eve of Hearths Warming Eve. However, a sudden surge of spontaneous squalls and droughts begin to violently wrack the area. Rounding up her friends, Twilight approaches the princess to ask for help, but as she tries to rack her mind for an explanation, one of Equestria's largest catastrophes is in development.

A Crossover with da' Pokemons.

Palkia, Dialga and Giratina have blown up one too many cities, and Arceus can not take this anymore. In a fit of despiration, he calls upon some old freinds too help teach them a sence of harmony, in the land of Equestria.

What could possibly go wrong?

Trixie Lulamoon, the personal student of Princess Luna, has finally, through a combination of reasoning, pleading, and whining, managed to convince the princess to invest some real responsibility in her, and give her a chance to show off everything she's been learning while under the alicorn's wing. Luna has appointed Trixie to be the official representative of her Night Court to the town of Ponyville, which this year will be hosting the Longest Night Celebration. Trixie is additionally tasked with overseeing the preparations for that festival.

At first, things seem to be going less than swimmingly. The catering is way too many kinds of apples, the weather patrol is far behind, the musical maestro is nowhere to be found, and the decorations could use significant toning down. To top it all off, Trixie can't help but feel that this was less an appointment to a position of real responsibility, and more an informal exile from the Night Court. Still, things could be worse: a mad alicorn goddess of fire and hate could escape from her millennial imprisonment on the sun and try and conquer Equestria.

But what are the chances of that?

A prequel to Boast Busted
Part of the Lunaverse
Now has a TVTropes Page!

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!

Isolated from her friends and taken prisoner in the middle of a war, Twilight must deal with the very real dangers of being percieved as an enemy as well as the nightmares of her arrival on 'Earth'. Can she overcome her own fears and the fears of her captors? Will the wayward unicorn's assistance be a boon or a curse to the 'humans?' Most importantly, will she ever find her way home?

"In short, it's a story of friendship and plasma rifles, with the emphasis on the friendship. The characters are well written, the XCOM setting is fleshed out very well, and the story is compelling. If you love XCOM, you'll love the story, but even if you've never heard of it, it's more than worth giving the first 3 chapters a read.

There's excellent action later on, but the real strength lies in the collision between the friendly and naive world of Twilight Sparkle and the desperate world of humans fighting a losing war for survival and willing to do anything to turn the tide."

--Arzoo

(XCOM/FiM crossover)
(Cover art commissioned by a friend and created by the magnificent FoxInShadow!)
(Original cover art by the amazing Carnelian can be viewed here!)
(Gore tag for blood and some violence)
(Many thanks to the studius OminousTen, Arzoo, xXFluttershyForeverXx and finally Setokaiva for giving my rambles a once-over)
(Now with it's own TV Tropes page! Get to tropin' folks!)

“And it's something quite peculiar,/Something shimmering and white./Leads you here despite your destination,/Under the Milky Way tonight.” –The Church, ‘Under The Milky Way’

While stargazing late one night, Twilight Sparkle notices a mysterious object falling from the heavens and landing just outside of Ponyville. Allowing her curiosity to get the best of her, Twilight goes to investigate, and what she finds surprises her. She finds a brown stallion on the inside of a blue wooden box. Who is this pony and why does he ask Twilight to trust him?

After testing another spell, it ends in a strangely common outcome:
Somepony ends up in another universe.

But this is different.(Or is it?) Twilight becomes one of the dominant species, in this case, an Espeon. And just who does she find? Pikachu and Fennekin.

(Pokémon from X & Y will be added as they are posted on the Internet. This is basically PMD: Darkness/Time/Sky, but with Gates to Infinity added as time goes on.)

A Collaboration with Omega_code

An Absol's life is full of pain and the tragedy of others but for one, Cres, that pain is much closer to heart. After a year and a day spent praying atop Mt. Coronet Cres is finally given the chance to obtain his long sought after Absolution.

However the strange new world he is thrust into is nothing like the one Cres knows and with the threat of never seeing the one he loves most hanging over his head, can this one Absol really find his peace?

Was originally going to be a short story until we realized that it had to be longer.