They called it conversion. The last desperate act to save an entire sapient species from the spread an effect none could have predicted, one that threatened to slowly, painfully wipe every human from the face of the earth.

It was flawed.

A Conversion Bureau reimagining.

Early one morning, Twilight Sparkle gets up to make some tea.

Sometimes, a cup of tea is just a cup of tea. This is not one of those times.

The Shaper is a smith of unparalleled skill, her creations the most sought after in the fallen world. When a pony named Lyra comes to her with a unique commission she has to put all her skill to the test to craft a weapon of great power. For Lyra's goal is not an easy one, and it is not just any weapon that can kill a Dragon.

A story inspired by this and this image, as well as this challenge by CDRW (whose fic A Still More Glorious Dawn Awaits is quite good).

Eighty years after the events of The Dread Chitin, Equestria is a radically different place. The arcane science of the late Duran Thirk and the information found on the Star League library core have combined to catapult the nation's science ahead by hundreds of years.

Now, facing the possible aggression of a completely unknown alien power, Twilight Sparkle and her friends have to gather together once more, leading a crew of the best ponies they could assemble in a voyage outside their own star system. They seek to learn about their potential foe, to explore the galaxy around them, and possibly find allies and friends to stand alongside them. Who knows what they will actually find?

The royal court of Canterlot welcomes its newest member with open forelegs: the human philosopher Voltaire, from Earth.

On Earth, Voltaire is known as the greatest enemy of tyranny in the history of literature, and a legend in his own mind.

On Equestria, the court betting pool is giving him a week before the Princess banishes him to the Moon.

Note: This story doesn't have sequels per se, but there are a couple of short follow-ups set in the present day ("Parade Coverage" and "Secret Histories"), and a prequel of sorts in "At the Inn of the Prancing Pony".

TV Tropes page.

Fluttershy has tea with Jesus and absolutely nothing objectionable happens.

Princess Celestia tires of constantly being surrounded by decorum, deference, and formality, and decides to take a day off from being Princess. But visiting Ponyville incognito is harder than she expects. Will she be able to fit in and make friends without blowing her cover?

The star system Omega Centauri was just another oddity on a map to scientists in the not too distant future. However when they found the star was orbiting an earth-sized, earth-like planet instead of a black hole as its motion had suggested, a mission was scrambled to investigate this most unusual of celestial behaviors.

Hamstrung by politics, and nearly crippled before it began, the 'Lone Ranger' mission was reduced to just one crew member and left to his own devices.

These are the logs of Arrow 18 and its lone commander. This information is classified TOP SECRET by the Global Space Agency.

Do NOT tell the princess.

What started as a normal friendly visit ends up taking two ponies on a trip down memory lane that leads them both to realize their friendship began even before Rainbow Dash's first sonic rainboom.

Twilight is approached by Applejack with a strange request - to join her that night for a run, but all is not as it seems. Why is Applejack so nervous? What could this be about?