Please do check out the Reading List by Lance Omikron to navigate the Amalgam Universe most clearly

A massive war of titanic forces is taking place in the Kaiju's world. However, when two faction's leaders, the current Godzilla and his 'brother' Xenilla duke it out; humanity unleashes its most devastating weapon. Something beyond comprehension occurred and the boundary that divides worlds, if only for the briefest of moments, was torn to shreds. New forms are taken, new bodies assumed. But old hatreds die hard. But how well can hatreds continue in the world of love and tolerance? Especially with its own demons follow it there?

Godzilla Franchise by Toho Company Ltd.
My Little Pony is owned by Hasbro Studios.
This is a non profit fan-work and I claim no ownership on the IP itself.
Story created by Tarbtano
Co-created and Contributed by Faith-Wolff and Skylark8756

HOLY SHEETZU WE GOT FEATURED! THANKS GUYS!
6/27/2014
Now on TV tropes (Thanks Raidrik, VampyGirl; Lance Omikron, Ultimomant, and ZimFan!)

Kaiju Cast:

Godzilla a.k.a Gojira
Xenilla
Mothra
Anguirus
Rodan
Destroyah

[Character copyright of Toho and Daiei Company, artwork property of Matt Frank]

(for any G-fans, Xenilla is the kaiju you may know as Spacegodzilla. I changed the name because I got quirked about typing it repeatedly and am writing the story so it can at least be understood by just an MLP or just a G-fan; and thought it get very confusing that one character's name was just another character's name with an adjective. Also... don't pretend it's the most imaginative name Toho has every made)

It's been a rough day for Twilight Sparkle. She was awoken in the middle of the night to save the town, had a chance to study an alien artifact ripped out from under her, and is now stuck with Applejack, Fluttershy, and her arch-nemesis Queen Chrysalis in some alien fighting tournament with a bunch of... things she doesn't even want to try and start describing without a cup of coffee and some asprin!

Indeed, Twilight and her friends have been summoned to join the latest Smash Brothers tournament! And as they explore the mysterious 'Smashworld' and meet new, colorful characters, they will be pitted head to head against new friends and enemies as well as each other! Can their friendships survive being forced to fight one another? Why are all the other 'smashers' so on edge? And what's with the bizarre being that purports to be the creator of this world, "the Master Hand?"

Only one thing is for sure. It's going to be a doozy.

Applebloom just wanted to spend a day with her friends, crusading for her cutie mark. Instead, she found something even deeper and more troubling about herself. Turns out she's not even a member of the Apple Family by blood. In fact, she's not even truly native to Equestria! She's an alien! An alien robot no less!

Now Applebloom will have to deal with the reality of her origins and try to cope with them and her newfound abilities as she moves towards her future; a future that just might never come to be if her new foes have anything to say about it. Decepticons are, after all, a monstrous cabal.

Now, it's up to Applebloom to light Equestria's darkest hour.

Cover image credit goes to Inspectornills

==Originally written spring 2011== Equestria Daily Post==
GLaDOS is free of Chell, free to continue testing, when she discovers a portal gun Wheatley tried to repair with duct tape. When the portal gun catastrophically fails, the enrichment center, GLaDOS, and Chell are literally dropped in the middle of Equestria. The mute test subject soon finds the world of ponies far more welcoming than the human world. But GLaDOS sees possibilities. Let the testing begin... for science.

There's something strange and unnatural living in Bon-Bon's house.

Something other than Lyra.

Only fools, madmen, and adventuring parties go into the Malpheggi, the swamp beyond the Everfree Forest. It can be left as an exercise for the reader as to which of these categories Samus Marcus (a Thyatian swordsman, or so he says) and Ivan (his companion in trouble) fall into. When they are rescued by the registered adventuring party, the Elements of Harmony, a grand quest across the D&D world of Mystara begins. Together they face culture shock, international politics, romance, dungeons, and a dragon with a grudge as Marcus learns how to trust his new friends and make up for his past mistakes while the Elements of Harmony try to save Equestria from a threat which proves more... complicated... than they originally thought. Also, pie. And hats. A D&D (Mystara)/MLP Crossover.

Zerg! And ponies! Brotoss! And ponies! Those other guys too...and ponies!!
Random Crossover Comedy. Leave your logic at the door.
The ongoing misadventures of the mane six and various guest appearances as they all strive to overcome the varied mad challanges and scenarios set before them.

Now with awesomely, way more betterness and all around great cover picture.

Equestria is barely three years old, and already danger threatens the fragile peace forged between the pony tribes. Monsters stream out of the Forest Ever Free on a daily basis, and now a prophetic dream foretells of even greater chaos that will befall the land.

It's up to Star Swirl the Bearded and his team of manly, heroic, eminently bearded (and strangely familiar!) stallions to brave the dark and murky Forest Ever Free in search of their one hope for salvation. Along the way, they'll learn more about the history of the land they've claimed as their own, not to mention each other. But as their unintended friendships grow, the forest will try its best to drive them apart.

Can they withstand the epic trials before them? Can they save Equestria? Will Star Swirl be known forevermore as the creator of Equestria's first beard-restoring spell? Journey a thousand years into the past and discover Equestria's epicest, beardiest history lesson ever!

Story tagged Dark for increasingly epic violence. Cover art by M. D. Quill! Accepted by The Royal Guard!

After GLaDOS is uploaded into a potato battery, Wheatley humiliates the AI even further by uploading her into a project that was abandoned by Aperture a long time ago. In the blink of an eye, she finds herself in a deformed body of flesh and bone that resembles an equine, and is just as powerless as one too. It comes with all of its needs and bodily functions as well. To make matters worse, she's trapped in a land full of insufferable creatures that just want to make 'friends.' Will GLaDOS' cold, sadistic sense of humor and morals get the better of the ponies? Or will they peel away the once artificial being's metallic shell and find that there's a softer side? Probably not, but it's worth a try.

Story Theme: Tyler Bates - I Love You (Watchmen OST)

Thanks to Meeester, MrJoshy, and funkyferret for proofreading/reviewing.

Cover by Fedte16.

Gordon Freemane is a pony who never got the memo about the Harmony that binds all of Equestria together. Or perhaps he's more in tune with the Elements of Disharmony, if there is such a thing. Whatever the case, he's as happy as can be when he's left on his own to do whatever he wants, which usually means avoiding the world around him and making plans for getting rich. It's a good thing he has a very bright mind. A very bright and active mind that helps as much as hinders him on his journeys to find the two things he loves: peace and bits.

In this firsthoof account, Dr. Freemane tells us about the places he's been, the things he did and the ponies that got in his way.