Godzilla's Lost Child II: The Lost City of Atlantis

by Cipher800

Rating: teen
Tags: Other, Romance, Mystery, Adventure, Crossover, Alternate Universe, Human, Twilight Sparkle, Main 6, Gore, Original Character, My Little Pony: Friendship is Magic
Length: 4813

After the climactic battle against SpaceGodzilla and Twilight returns to Equestria, the lost city of Atlantis, only classified as a mere folk tale by the humans, rises from the depths of the ocean.

It all started out when Godzilla awoke from the ice. He went towards the Crystal Empire and easily defeats the Mane Six, only to find out that Twilight Sparkle is his long-lost daughter. He wanted to put his rage behind him, put Equestria behind him, put everything behind him and his daughter.

It went typical from there, a new threat arrives, Twilight returns to Equestria with her friends, fights the threat, accepts her past and defeats it, achieving a hybrid form in the process. But this isn't the end of the story of Twilight Sparkle's adventures.

Three months after the events that led Twilight to accept who she is, and a new adventure begins as a mysterious island a little more than four times the size of Manehattan rises form the ocean waters a few miles southeast of the Dragon Island, one containing an even more mysterious city that was hidden under the sea for millions of years, one supposedly inhabited by the humans from the past.

Now, Twilight Sparkle had another adventure in hand, but this time, she's not alone. Follow her as she and her friends search for the city's ancient knowledge along with a mysterious griffon hermit before they fall into the hands of another evil set on world domination.

Published 2018-07-28 03:30:01 UTC
Last updated 2018-08-23 01:23:41 UTC

Prologue

It all started with the basics. The King of Monsters had mated and produced three children, two of which died. The last child was seemingly destroyed mid-hatch by a new weapon the humans have made. However, the hatchling wasn't dead. She was instead turned into a pony millions of years into the future, and that pony was Twilight Sparkle.

She was raised with no idea of her true past, and was taught by her adoptive family and friends, as well as Celestia. She grew to be successful, and was even crowned a princess. However, everything changed when Godzilla showed up. When he found out that Twilight was indeed his daughter, he immediately took her miles away from Equestria.

However, that didn't stop her friends from coming for her need. Heck, they even went to the ends of the earth to bring her back to Equestria to stop another powerful threat. Twilight had to accept her past some time or another, and during the climax of the fight, she did just in the nick of time, and achieved a hybridized form. While her new form was based around her alicorn self, there were some Godzillalike features like a long tail, mouth full of fangs, fully functional hands and feet covered in black scutes, and oviparity. Don't ask how they discovered that last one.

Despite her new features, Twilight was accepted back into Equestria, she accepted her new form, and everything was going so well. It's been three months since the incident happened, and life in Equestria pretty much went back to normal. Well, as normal as it would when one of your rulers is the offspring of the King of Monsters.

Twilight Sparkle opened her eyes to see nothing but the open ocean. "Wha?" Twilight said. Ever since her transformation happened, she was no longer connected to the dream web, and her dreams operated without magical influence, which made them more random and sometimes, she doesn't even know she was dreaming. Twilight looked around to see more water around the raft she awoke to. "Is this another dream?" Twilight asked to no one.

Suddenly, the ground below began to shake, causing the waves to form and her raft to thrown about by the sea like it was a cork in a bathtub. Suddenly, a spire of rock stuck out of the water, piercing her raft and forcing the hybridized pony to propel herself into the air with her wings. As the spires went out of the water, it became more clear that those spires were the tops of mountains. Twilight watched as the mountains rose, with vegetation already on it. "I have to tell Celestia about this!" Twilight said when she saw the water receded away from the valley, revealing a Greek-looking city laying right in the middle, unscathed by the water, yet was covered in vines.

She flew as fast as she could before she remembered she could teleport. Charging her horn, she teleported to Canterlot to alert Celestia. When she came, however, she saw that Equestria was sinking. "No!" Twilight said as she tried to open the castle's door, which was already locked. When she looked into the window, Twilight saw that the whole castle was flooded in water. "No! It can't end like this..." Twilight said as she tried to claw the windows open with her front claws.

"IT CANNOT END LIKE THIS!" Twilight said, bolting out of her castle bed before breathing deeply. "It was just a dream." she thought aloud before looking out her bedroom window. The sun had just rose, and her little brother, Spike, was fast asleep in his bed. "Thank goodness..." she said as she looked at the alarm clock. Groaning, Twilight stretched her arms and wings to her sides before getting out of bed before getting out of it, using her magic to hands to pull the covers back into place, which was common because of the new way her sleep operates, and ever since she took that form, she didn't feel the need to do magic as much as she did when she was a pony.

She walked towards the kitchen, ready to cook some breakfast. Opening the fridge, Twilight pulled out some materials needed for her and Spike's breakfast. Spike got his usual gemstones, but Twilight's new body had led to changes in her diet, like the need to eat meat as well as plant matter. Thankfully, that wasn't much of an issue. Twilight's current breakfast consisted of blueberry pancakes with maple syrup. She was flipping the pancakes when a familiar purple dragon came in, already done with his molt three days ago. "Morning, Twilight." the little, drowsy dragon said with a yawn.

"Good morning Spike. How many gems do you want?" Twilight asked. Just about when Spike was ready to start, Twilight beat him to it. "Oh, who am I kidding. I know how you like it." the princess said as she put in just the right amount of gemstones for the growing drake.

"Twilight, what have you been thinking about for these last three months?" Spike asked as he looked towards the lavender hybrid pony, who had just finished baking her pancakes.

"I have been thinking about what happened three months ago. I knew these humans tried to destroy me when I was about to hatch, but think of all the technology they had. But unfortunately, and somewhat fortunately, the last of it is nothing but fossils, now." the Princess exclaimed as she sat down on the table. "Imagine that we could see some intact pieces of their tech, even if it is just for a little bit."

"Yeah, it would be nice to see it." Spike said as Twilight took a bite from some of her pancakes.

"Not that I'm getting ahead of myself or anything, these adventures are fun and all, but I had enough for a year." Twilight said, wrapping an arm around her little brother, who let out green flames, revealing two tickets to the year's Grand Galloping Gala.

"Would you look at that, tickets to this year's gala." Spike exclaimed as grabbed them and handed one to Twilight, who smiled sadly in response. "Don't worry about the nobles, Twilight. They're not much of a threat to you or your title."

"Oh, them." Twilight said. Ever since she arrived back, the more corrupt nobles were trying to remove her title, and there were a few families even going as far as to steal files and make false records. Those families weren't very smart to begin with, and were caught easily and stripped of their titles. "I know they aren't going to bother me, but I just remembered the craziest dream I had last night."

"Tell me about it."

Meanwhile, in the tropical jungles south of the Dragon's Lair, a lone hermit lived in a cave. Said hermit was mostly griffon in structure, but he some diamond dog (dogfolk) in his roots, hence the grey, shaggy fur and the dogfolk's signature spiked club on the end of his tail, though it was slightly darker than the rest of the tail. He had light grey feathers covering his head, and his beak and claws were dark grey rather than the normal yellow.

"Alright, I think I have it." the hermit griffon said as he drew on the map, painting a red X on his destination. "It shouldn't be too far from here. Here goes nothing, Matthew. Pretty soon, you'll find out what it is..." the griffon said, rolling the map up and putting it in an old vase where he keeps all his maps. He then turned his attention to his journal and began to write.

Author's Note

The old sequel was out of freshness, so I deleted it and decided to make this instead. The human tag would be explained later on, and the romance tag would as well. This would also take less from the Godzilla franchise, depending on how I and my proofreader feel.

Anyways, enjoy.

Stranger at the Gala

It was night time in the city of Canterlot, but it was quiet. There were no ponies on the streets, and every house had their lights turned off, and the only things moving were the rustling of leaves, some stuff moved by the wind, and the occasional nocturnal animals. The reason why was because everyone was at the year's Grand Galloping Gala. However, there was one being walking about, a bipedal figure draped in a snappy suit fit for a human executive, whose face was concealed by the shadow of his hooded cloak. He gazed onto the only building of light and walked until he saw two guards flanking the door. Quickly, he turned invisible and walked towards the door, pushing it open, much to the two guards' confusion.

"Wait, what?" one of the guards said as he looked at the doors seemingly open by themselves.

"Probably just your imagination." the other guard replied. "All that boredom must have been getting to your head."

Meanwhile, the hooded figure walked across, looking at the various ponies donned in fancy clothing. "Alright, this is the place she is at." He said as he looked at the place, not that anyone would be able to hear him. He kept walking around the place until he found his target: a purple alicorn pony with a navyblue mane. However, there were hybrid features, such as fangs, claws, and a tail currently hidden by the dress she was wearing, which was light blue with dark blue trimmings.

That was Twilight Sparkle, the lost child of the King of Monsters. But he was not going to kill her. No, he was going to have a talk with her about her dream. Pulling out a watch, he clicked it, and everyone and everything stopped except for him and the now panicking hybrid. "Wha- what's going on?" Twilight asked, trying to get them to move, but to no avail.

"They cannot move, not even Pinkie can. Time has been stopped." the hooded figure said, causing Twilight to turn around, and he was no longer invisible, and was now unhooded, revealing the face of a human man with brown hair that greyed at the bottom. "We need to talk."

"Who, who are you, and what do you want with me!?" Twilight asked, pointing a shaking finger at him.

"Oh, just a stranger. And I don't want anything to do with harming you." the Stranger said. "I'm currently here because of your little dream about the lost city of Atlantis."

"But how? I thought my dreams weren't run by magic."

"They aren't, but I don't use plain old hocus pocus to do my thing." the Stranger said as he pulled out a cigarette before sitting on one of the stray chairs. "Come on, have a seat..." Twilight, seeing that there's no choice, sat down upon the nearby chair. "Do you know anything about Atlantis?" he asked.

"I don't know about any city called "Atlantis", though if you referred to the city in my dreams, which is kind of creepy, it rose out of the water, and-"

"That's all I wanted you to know before, kid. The island of Atlantis was real, and so was the city." the Stranger said as he pulled out something, which pulled out a holographic map of the Earth's globe. "Alright, here's the skinny. This is what the planet looks like now." the Stranger said before pushing a button, and the world seemed to rewind like a television would if you press a button on the remote. As the globe rewinded, time seemed to go backwards instead of being frozen, and everything went from there.

"To start our story, we must go way back in time."

"But that still doesn't explain why you take human form, no offense. Though, I haven't heard your name."

"None taken, but I have to say, I don't really remember my name, it slipped from my mind ages ago." the Stranger said as he pulled out another cigarette before pushing pressing the "Play" button, returning to normal speed. Twilight began to notice a few things on the globe. First off, what used to be Equestria was now a different landmass. There was also a small island right off where the straits of Griffonstone used to be. "And this was what Earth looked like at the dawn of the Atlantean Empire." the Stranger said as they looked on at the scenery. First off, they were not in the castle anymore, but the table and chairs were being suspended above what looked like a city.

"That, that's the city from my dreams." Twilight said.

"Yes, the very same. This is the Atlantean capitol city of Megali-Nero, around 4,500 B.C.E. or so." the Stranger said as the hybrid pony gazed upon the city. "We are currently in the human era, but at Atlantean times, there were absolutely no other civilizations on the map, leaving the Atlanteans to do as they please. Just as some of the nobles in Canterlot see anyone who is not a pony as barbarians, they see anyone who isn't Atlantean as barbarians. Two thousand years before this, the kingdoms united into a single confederation and began to invade the Eastern Americas, the Mediterranean, and anything within access through the Atlantic Ocean. They were a savage people, settling the areas and forcing the local tribes out of their homelands." the Stranger said.

"At their height, the Atlantean Empire was like a Super-Roman Empire of sorts, they were at the top of the world, or so they thought." the Stranger said before he pressed a "Fast Forward" button, causing it to speed up and went through five hundred years. Twilight looked on to see that it was storming. "However, the Atlantean greed was also their downfall. They were so obsessed with expansion that they hardly paid attention to any major disasters that would've come on their home. A rebellious man known as Kronos was experimenting with an early form of magic, and it went from there. One faulty spell and the whole island began to fall underwater." Twilight's eyes widened as she saw the massive city submerge into the ocean down below. "Without the island, the Atlantean Empire was a headless chicken. The colonies soon fell into anarchy and eventually fell to the very 'barbarians' they've outcasted so very long ago. From the ruins of the once great empire came the foundations for the Egyptian and Sumerian empires, then eventually, the rise and fall of your father." the Stranger said as he fast-forwarded time back to the way it was.

"Now, it is best you do not tell this experience to the others. The city will rise, and when it does, you must go there with an acquaintance of mine before someone else takes the knowledge for his or herself. But don't worry, you won't have to worry about it tonight, at the very least it would be tomorrow. I wish you luck, Daughter of Godzilla." And with that, the Stranger pulled out his watch, and with a flash of light, he was gone, and time was moving normally again. Twilight blinked her eyes and shook her head, just as her friends looked back at her.

"Twilight, how did you get up here so quickly?" Pinkie asked.

"Ummm…" Twilight muttered before the pink party pony bursted out laughing heartily. Twilight couldn't help but laugh alongside her. Truth be told, she was surprised that Pinkie Pie did not know about, even when the Stranger gave her a warning beforehand. She put aside those thoughts for now and began focusing on the Gala.

The night was still young, after all.

The Lost City Rises

Twilight groaned as she woke up with a pencil imprint fresh on her cheek. She looked around, seeing that she was in her castle library. "How- how did I get here?" she said as she groggily shook her head. "Wait, was that all just a dream?" Twilight said. She had pretty crazy dreams since the encounter with Godzilla, and this was probably no different.

"Twilight, you fell asleep organizing books again." a familiar voice said as its owner knocked on the door.

Was it all just another dream of hers? "Oh, hey Spike. I- I'm awake." Twilight said as she walked to the door, opening it with her claw. She expected to see her dragon tapping his foot in annoyance, but instead, the door was flung off its hinges as an explosion knocked her and the door back, knocking her five feet away and into a recently-organized bookshelf, causing books to pile upon her. She covered her ears as a voice that put the Royal Canterlot Voice to shame yelled out into space.

"RAAAAAAAAAAAAAH!!!"

Twilight gasped as a human man with coffee-colored skin and brownish-black hair, donned with a suit of light blue armor burst forth, setting everything on fire as he walked with a spinning trident in his hands, causing fireballs to go all over the place. "NO!" Twilight said as she jumped out of the way to see the man burst through her wall, leaving a gaping hole and the smell of burning books behind. Who in the right mind would just show up and destroy someone's property?

"Twilight..." a familiar voice said. She panicked and went out the door to see her baby brother laying there. His scales were already covered in the soot, and the smoke was nearly getting to him. "Save yourself..."

"Spike, please don't die!" Twilight said as she hugged the dying dragon. "Don't die, don't die, DON'T DIE!!!" Twilight said as she hugged him tighter and tighter as he cried. Her tears literally started to flood the area, and a fish was seen swimming in the background. "Oh no, not again!" Twilight said as she closed her eyes. With a quiet gasp, she once again went out of bed, silently breathing. "Great, another vision." Twilight grumbled as she went to back sleep again. Fortunately, it wasn't going to be daily, but the bad news is that it is becoming closer and closer, and who is the Stranger's acquaintance? All she wanted after the SpaceGodzilla incident was to have a break at those adventures. Granted, three months was a good break, and comparatively long, but the fact still stands.

"Let me guess, another weird dream?" Luna said as she looked out into the window. Ever since the incident, Twilight's dreams did not run on magic, and thus, Luna couldn't access them. Instead, she and Twilight would talk about said dreams if they turn out to be of some importance.

"Yes, it was. I was studying in the Castle when all of the sudden, this armored human wielding a spinning trident burst through the library, burning everything in his path and burst through my wall." the hybrid pony said with a shudder at this weird human man. He looked similar to the Stranger, but his colorings and clothes say something else. "I don't know who keeps sending my dreams, though." Twilight said, half-lying. She knew the Stranger sent the first vision, but she wasn't sure about the second one. "The first dream, I merely shrugged it off, but I'm positive that it won't be good."

"Hmmm, very interesting. If you have any more of these dreams, let me know. Even though I cannot visit them, I can still decipher the meanings of your dreams." the princess of the night said. Usually, Twilight's dreams were now of a random chance due to her now hybridized nature. But these dreams of flooding were starting to concern her friend more and more. "Perhaps a new threat is dawning, Twilight. You must come prepared." Luna said as Twilight nodded in response. Maybe the threat wanted something to do with the city, maybe that was who the Stranger was talking about?

"I haven't seen anything like it, but after the incident, I think I can take on- woah!" What Twilight had to say was interrupted by the shaking of the ground. Both her and Luna kept aloft with their wings. "Oh no, the island from my dreams!" Twilight said in realization. "It's rising from the sea!"

Meanwhile, in Ponyville, Discord and Fluttershy were having their regular tea, when Discord's body wiggled around as he sensed a magical imbalance. "Oh, that can't be right." Discord said as he felt a huge mass of some strange energy just southeast of the Dragon's Lair.

"What is it?" Fluttershy said to her mismatched friend.

Just as Twilight's dreams predicted, the planet's plate tectonics have awoken once more, and a large chunk of the ocean floor started glowing with proto-magic. A huge storm circled the area, lightning flashed, thunder cackled, and it looked like it was raining, but the sea water was going up into the clouds as a new landmass rose from the depths. First came the tips of the mountains, rising as the spare water started going back up into the clouds. At that point, they looked more like a barren, sandless set of islands than anything.

A thousand feet later, new grass started to grow rapidly until it looked like it was always there. Pretty soon, the rising mountains gave way to a dense jungle, rolling hills, and eventually, the valley began to take shape. A bolt of lightning struck a newly-formed glacier, causing it to partially melt and give rise to a waterfall. The new river flowed down the island's valley, cutting through the jungles and snaking its way through lakes and around hills.

Pretty soon, something else rose from the depths of the seas. The first metal spires of a lost city were unearthed from the surface of the ocean. Then, came the red tiles of the highest roofs, some of which were still covered by some stray seaweed that managed to latch onto its foundation, and finally, the roads were unearthed. At the middle of the central plaza, a mosaic of a trident lay, one that remained intact for millions of years, buried under sediments and water. With that logo, there was no mistaking this city for anything else.

The lost city of Atlantis has risen from the depths.

Heading For the City

"Has it stopped?" Luna asked as the two landed back on the ground. They both stayed there for a while and checked for any more tremors. However, there were no more to be felt.

"For now, I guess." Twilight said. "The dreams always said that it would flood some time after the city rises." The hybrid pony went to a nearby desk and grabbed a pen and a piece of paper and began writing a letter, but not before someone else came into the room.

"Dear Twilight, you do not have to do that." an all-too familiar voice said. With a flash of light, Discord appeared right before their very eyes. "We all felt the tremors. I, myself, felt the near-impossible amounts of raw energy build up somewhere southwest of the Dragonlands, and then, it stopped. I think your dream about the city was true after all." Twilight said nothing, as she was really scared. "Don't worry your pretty little head about that little problem, I figured that you didn't want to go out all alone." Discord said as Twilight looked to see her friends right there in the same room.

"Hi, Twilight. Ready to go to the lost city of Atlantis?" Pinkie Pie said in her usual cheerful voice as she bounced towards her hybrid friend like she usually does. Twilight knew the name of the city, but she was sworn to secrecy until further notice, and she was very worried about her latest vision.

"I guess I have no choice, don't I?" the former bearer of magic whispered under her breath, electing a nod from Pinkie.

"Then there's not a moment to lose, we have to go there and prevent Equestria from sinking. Discord, could you teleport us there?" the pink pony asked.

"I can't. Though the energy there has stabilized, there's no telling what my chaos magic would do if it comes into contact with it. For all I know, the world would end." Discord said. "However, I am able to transport you back to Ponyville. The next train should be arriving in about an hour or so, plenty of time to pack whatever you need for the trip. There's not much else I can do and, I don't know if this is a threat or not." Discord said. "I wish you luck." the mismatched draconeqqus concluded as he snapped his fingers, and the Mane Six were transported back to Ponyville.

The six heroines parted ways to collect whatever they needed or wanted for the trip. Of course, all six of them had something that they needed to bring. Such examples include Applejack bringing some apples, and Fluttershy bringing her favorite stuffed animals, and some fish for Twilight. Speaking of Twilight, she invited Spike over for the trip, but he was too busy playing some magically-enhanced Ogres and Oubliettes with Big Mac and Discord, who was his usually chaotic self again when she asked Spike if he wanted to join or not. Though she accepted, she was still worried and told the three what to do if the place started to flood. Soon enough, they were finished packing and were waiting at the station for their train to come. Fortunately, their wait was short, and the Friendship Express arrived a few seconds after they did. There was no turning back. They thought about it for a little bit, but they all decided to go on the train.

Meanwhile, someone else was heading toward the very same island. The gryphon wondered about the strange human whom he encountered several days and why he was making him go this way. He remembered the encounter it like it was just yesterday. He lived as a hermit on the borderlands of Griffonstone when he encountered the man. At first he thought it was just a dream, but as the days came by, he started to think back. Soon enough, the Stranger came back again, and this time, he listened to him. The Stranger, however, did say that the journey won't be on his lonesome. He just wondered who he was with. "They're on their way." a familiar voice said. The griffon looked to see the Stranger sitting on the boat alongside him. "You still don't know why you are here, aren't you?"

"You can say that again." Matthew said as he continued rowing. "A little help would be nice, especially since that massive storm threw me off course."

"Actually, your right nearby." the Stranger said as he pointed his finger towards their left, and what Matthew saw was an island that wasn't there. "This is where the tremors were caused. You have to go to there and camp near the ruins for the night. Then, your partner will come."

"Why do you want me to have a partner in this voyage?" Matthew asked.

"One, you've been cooped up without anything better, and two, it's because this one is very special, she's a lot like you." the Stranger said as he stood straight up and started to glow white. "And besides, I have business to do elsewhere. See you later." And with that, the Stranger was gone from Matthew's view. The griffon hybrid looked and sighed as he rowed towards the lost island. He had gotten enough supplies and was now ready. Whatever the Stranger was planning, there was no turning back.

Meanwhile, on the Friendship Express, the Mane Six were waiting for their stop. Twilight had grabbed a book in her hands about rising and sinking landmasses. "So far, there's nothing that has came remotely to the size of this thing, or even cause a global earthquake. Whatever magic that rose Atlantis must be pretty powerful." Twilight said as her she looked on for information, but she hasn't found anything yet. The closest thing to Atlantis she knew of was Sequestria, but its history was different than from what the Stranger had told her about Atlantis.

The hybrid pony looked at her friends. Pinkie Pie was her usual excited self, and she was practically bouncing at the thought of going to Atlantis. Applejack and Rainbow Dash were betting on how many Atlanteans they would have to fight if they turn out to be hostile. Fluttershy was shaking like a leaf due to the unfamiliar magic that Discord felt, and Rarity wondered if there would be any intact mosaics she could scavenge.

As for herself, this is the second time she's gonna be in an unfamiliar region. Only this time, she'll have her friends with there for her. But there was one thing she knew so far. There was no turning back.