Sonic and Sereine were able to make it into the core of the A.R.K. after Knuckles unlocked to allow them inside. Both were clinging onto a pipe that made them slide down into the core. Sonic landed perfect, but Sereine stumbled a bit. "Sereine, are you hurt?" Sonic went over to Sereine to check and see if she had any injuries.

"No, I'm ok. I just need to learn how to land on my own two feet next time." Sereine said as she gave Sonic a warm and comforting smile.

"Ok, well, if you ever get hurt or you need anyone to come rushing for you, call for me ok?"

"But how will I do that?"

"Whistle for me!" Sonic put his hand on his mouth while two fingers were inside and made a loud whistle. Sereine tried to copy it, but couldn't.

"No no, like this." Sonic helped out Sereine as she struggled to make a whistle like that. Finally, she blew into her fingers and loud whistle was emitted that rang through the core.

"I did it Sonic!" Sereine hugged Sonic tightly at the accomplishment she made for herself.

"Yeah, it was a good whistle too!" Sonic helped up and Sereine as he stared at the path leading to the core. "This is not gonna be easy Sereine."

"I know it won't be. I'm ready to face it though to help our planet."

"Let's get going! We have to hurry before it's too late!" Sonic and Sereine jumped over a large and vast gap. Unknowingly, Sonic was attacked by a blue creature that had a metallic head in the shape of an odd creature. It stretched out its arms and shot lasers from its eyes as it attacked Sonic. "Sereine, watch out!"

Sereine jumped up as the arms tried to hit her. She studied the enemy, and then hit it in the body. The body was too bulbous for her to hit, and Sereine was knocked back. "Man, how can we beat this thing?"

"Maybe the head is its weak point!" Sereine pointed to the creature's strange head.

"Ok, I'll try going for its head!" Sonic jumped into the air high, curled into a ball, then spun into the creature's head as he smashed it completely.

"Well, that's one obstacle down, but we have more to face!" Sereine pointed towards the path that was littered with electricity and robots. "Man, why does this place have to be heavily guarded?"

"Sonic, if it wasn't guarded, people would have been able to reach the core and screw up things."

"Good point! Let's go! I think those weird globe things might be able to help us!"

Sonic touched one and witnessed time standing still. Nothing moved, breathed, or even was heard. Sonic spins through the robots and destroyed them just in case when the time was up for them. They looked over a ledge and saw orange liquid flowing like a river. "Do we have to go down there?"

"I think so Sereine. Come on! It looks like fun anyways!' Sonic smirked as he jumped into the flowing orange river below.

"I hope we don't die. I'll hit this switch so Sonic and I can make it out alive." Sereine jumped in as her and Sonic zipped through the water. "Whee! This is fun Sonic!"

"You got that right!" Yahoo!" Sonic and Sereine made it to the end of the slide and landed onto solid ground. The core was filled with liquid all around, and a platform was in the center that was shaped like a ring. Ahead of it, an old shrine and an oddly shaped purple machine that started to pulsate. Knuckles made it into the core as well and studied the shrine ahead. "What the hells that? It looks just like the shrine for the master Emerald!"

"They probably designed it that way to harness the Chaos Emeralds power!" Sonic said. Sonic, Knuckles, and Sereine rushed off to get to the shrine. Before they could make it however, a strange noise was emitted from the purple machine that was like static at first, but then displayed an image of an old man tied up in chains who shouted "All of you ungrateful humans, who took everything away from me, Will feel my loss and despair!" It repeated itself over and over again, and in the middle an electric portal began to open. "Knuckles, Sereine, here it comes!' Sonic shouted. Out of the portal came a gigantic lizard. Its roar echoed through the cannon's core. Its body was red and black with some yellow on its sides, it had gills, no eyes, and a machine on its back. Sonic and the others stood in shock at this odd creature.

"Is this the prototype that was supposed to be encapsulated 50 years ago?" Knuckles said.

"Man, that thing is so ugly and huge!" Sereine was shocked at the creature's stature.

"Leave this to me. I will deal with him." The black and red hedgehog appeared out of nowhere.

"Shadow, what are you doing?" Sonic said in a confused voice.

"I'll take care of him while you run to the shrine and get the emeralds!" Shadow made his demand very clear. Sereine stood there not knowing what to do. "Shadow, can I help?"

"No, this is my fight. You stay there and wait until I defeat him, ok?"

"Ok. Good luck! And please kick his ass for us!"

"I will." The prototype was known as the Biolizard by the info that Shadow had read before. It was a failed prototype that was meant to be shut down, but was not. In a sense of sorts, it is like a "brother" to Shadow due to the fact it is a prototype. Shadow did not care though. All he wanted to do was keep a promise he made to an old friend and Amy back at the lab. The Biolizard roared and opened its mouth wide, trying to bite or swallow Shadow. Shadow ran around in a circle as the Biolizard was trying to clamp down on him. Sereine had to sit and watch, but she felt like she needed to help. The Biolizard finally made himself tired, and tried to draw energy through the pipes in his mouth. "Shadow, try grinding on the pipes! I think it will allow getting to his back and damaging the life support system!" Shadow paused for a moment.

"Ok, I trust your opinion!" Shadow jumped into the air and landed perfectly on the pipe. As fast as landed, he got the Biolizard's back. With a jump off the end of the pipe, Shadow was high in the air, then curled up into a ball and smashed into the Biolizard's life support system. The Biolizard let out a horrible cry that sounded like a big cat would make if it became wounded. "It's working!" Shadow said happily.

"Good job Shadow! Just wait until he gets tired! Then you can use the pipes and damage the life support system further!"

The Biolizard began going in a circle again trying to swallow Shadow. Shadow was keeping ahead, but did not want to go too far. The tail was swinging back in forth, waiting for Shadow to run into it. The Biolizard wore himself out, but this time around he had an attack plan: The Biolizard began shooting black ball of energy out of his mouth. "How am I gonna dodge this one?" Shadow thought to himself. When of the energy balls came close to his feet, he jumped in the air. One went above his head, and he did a somersault to avoid it. "I see. So the ones low to the ground I can dodge by jumping, and the ones that fly above my head I can dodge by somersaulting. I get it now!" Shadow dodged as many of the energy balls as his can before the Biolizard became tired and was restoring energy. Shadow jumped onto the pipe, and once again hit his life support system. The Biolizard's cry was horrible to listen to like nails against a blackboard. "Damn, he's one tough opponent!"

"Shadow, don't let yourself get distracted! Concentrate on beating him!"

The Biolizard seemed to be getting weaker, but little did Shadow know that he was still packed with a lot of power. As the two finish going around the platform, the Biolizard let out a roar and created pink orbs that floated in the air. Shadow was confused at this, but realized it was a type of attack when the orbs began to head straight towards him. "How in the world am I supposed to get up to his back now? He's not using the pipes to charge himself anymore!" Shadow kept dodging the quick orbs as they were aiming at him from every corner. "Shadow! I think I know a way to get up to his back! Maybe you should try hitting those orbs and use them as steps to get up to his back!" Sereine's voice was loud and clear as Shadow listened carefully.

"Are you sure about that?" Shadow said as he was dodging more of the pink orbs.

"Yes, I'm sure! Now hurry, before he does something even worse!"

Shadow jumped high into the air and with a kick hit and orb and began to ascend. He had to be quick about it though, since the orbs were still aiming for him and trying to stop him from getting to the life support system. Shadow finally made it to the top and made a powerful kick to the life support system. The Biolizard let out another horrible cry, but he was still not dead yet. "Come on you stupid prototype! Die already!" The Biolizard began charging energy from its life support system. Shadow didn't know what to expect from the attack, nor did he have a clear idea about how powerful it was. Finally, the energy stopped charging, and the Biolizard let a rainbow like laser ray that was blasting towards Shadow. "Damn, he just won't give up!" Shadow had to keep running as the laser was chasing him down like a hunting dog. Finally the laser receded, and the Biolizard was trying to gain energy from its pipes again. Shadow immediately jumped onto the pipe, reached the back, and kicked the life support system again. The Biolizard's roar echoed through the core, and he seemed to be really weak. However, he has not giving up just yet. He created the pink orbs again, but this time he added the laser to it as well. "Damn, he just won't stop!" Shadow had the trouble of trying to dodge the pink orbs along with the laser. Every time he dodged and orb, the laser would come towards him. "This is not gonna be easy at all. I have to use those orbs to get up to his back without that ray touching me." Shadow was thinking of a way to hit the life support system. The Biolizard finally stopped using the laser, but his orbs were still shooting at Shadow. The Biolizard let out a roar as he changed the gravity and lifted Shadow into the air.

"Well, this is easier, but I have to be careful not to touch any of the orbs." With much caution, Shadow dodged the orbs and was able to make it to the Biolizard's life support system. Shadow jumped into the air, and with all of his might, smashed into the life support system. The Biolizard let out many cries of pain as he finally was defeated. "Shadow, you did it!" Sereine shouted from the sidelines.

"Thanks. We should head up to the shrine!" Shadow and Sereine rushed up to the shrine where Knuckles and Sonic stood. Knuckles brought out a large green emerald and place it in the center. He began reciting an old saying: "Chaos is power; power is enriched by the heart. The controller of the emeralds is the one who uses that power. Only you can do this! Stop the Chaos Emeralds!" The green emerald spun around and gave off a strong energy as it stopped the power of the Chaos Emeralds. The Biolizard began roaring, and without warning disappeared. "Is he gone now?" Knuckles asked.

"Is that what the power of Chaos Control does?" Shadow asked. The ground began to shake as Knuckles fell over and the others held their ground. "If the Master Emerald already stopped the Chaos Emeralds, why is the colony still heading for Earth?" Knuckles said. Over an intercom, Eggman spoke out "The prototype is still alive! He has become one with the space colony and is determined to keep it on it's course! Think of something quick, or else we will all perish!"

"Sonic!" Knuckles said as he looked at Sonic.

"Sonic, what are you gonna do?" Sereine's voice was filled with worry. Sonic looked at Shadow, and Shadow did the same. Knuckles and Sereine both gave confused looks as to what the hedgehogs are thinking. What are they thinking? Do they have a plan to save the Earth? What could it be, and will it work out for them?