Author Notes: I do not own any of the characters of Flash except my own original characters.
This is my first FanFic ever, so be kind. If I receive enough positive feedback I will continue the story. If there any typos or errors I apologize. This story takes place sometime after season 2, but with no flash-point. I didn't really like season 3 and if it wasn't clear earlier, this is a Snowbarry fic with a few other ships mixed it. Please enjoy!
The Organization. That's all they called themselves. A group of people led by a faceless and unknown leader who has led Central City and the world to believe that all meta-humans were a threat to humanity. They created fear and promised to protect, to control the "out-break" of meta-humans. When the Organization sent the first wave hunters, they were seen as nothing more than the Flash's clean-up crew of the metas he took down. Central City already had a hero and the crusade of the hunters only applied to those who misused their abilities. Team Flash saw them as cautious allies, but kept their operations separate. It worked for a short while, but then the Organization turned their sights onto S.T.A.R. labs and everything it represented. S.T.A.R. Labs created the meta-humans that plagued the city to this day. It was a constant reminder of their failure and the lives they destroyed and continued to destroy. A few years may have passed, but the Organization knew it was something the citizens of Central City would never truly forgive. So, they used it to their advantaged and started to turn the city against S.T.A.R. labs once more.
Protestors began to show up demanding the lab shut down and the building blown to sky. The majority of the time the team was able to ignore the protestors and still hide the secrets they kept within their walls. The heroes continued to protect the city as the support of the Organization and their crusade began to grow. More and more protestors showed up at the doors of S.T.A.R. labs and later outside the homes of Cisco Ramon and Caitlin Snow. It took less than week for Cisco to move. Caitlin on the other hand stayed where she was. She was living with Barry and the protestors tended to keep their distance anytime he was around, knowing his connection to the CCPD. Barry and Caitlin could easily ignore their enraged yelling and colorful picket signs.
Then one night, when Caitlin went home alone, things escalated to violence. As Caitlin was pulling into her driveway, a random man from the group broke away and approached the vehicle. Smashing in the driver's side window, he unlocked the door and dragged a struggling Caitlin out. He hauled her up his body, pressing her backside to his front and lightly pressed a knife into her lower back. "This is a warning icy bitch!" He whispered harshly into her ear, then pushed the knife into her body. Her screamed echoed through the night, causing the protestors to quickly scatter and disappear. The man let go of Caitlin and she dropped to the ground, the knife still impaled in her body. Dr. Snow swears she heard the man chuckle before walking away, vanishing into the darkness.
Caitlin was able to stay awake long enough to send an emergency signal to Barry before blacking out. When Barry arrived, Caitlin was strolling down the street with pale white skin and platinum-blonde hair. Killer Frost had come out to play. It took both Barry and Cisco to take her down once again, all the while with a knife sticking from her back. When Caitlin came to, she broke down in tears knowing full well the damage that had been done to both the city and heroes reputations.
The Flash had tried to get the town to see that what had happen was an accident, that Killer Frost had lost control of her powers after being severely injured, but nobody believed him and she was labeled as a villain. Killer Frost became one of the most wanted, second to the Flash. But few came after her or the speedster due to their immense power. They were left alone by all. The city no longer supported the scarlet speedster, not after he defended the icy villain. In the cities eyes, the Flash and every meta-human needed to be apprehended and controlled.
As the city turned their backs on the hero and his companions, the hunter's organization had come sweeping in claiming they could help Central city by regulating and controlling the meta population.
A few months later, half the of the known meta population had been captured, registered, and put in a sanctioned part of town with power depressing shields. Broadcast were made across the city asking metas to turn themselves in and citizens to report any possible meta-humans and incidents regarding them. The hunters were even able to get the CCPD to help with tracking and capturing. Every other known and possible meta went to ground after that and the capture rate dropped dramatically. That's when the hunters truly began to hunt.
The Organization stepped up their game by recruiting some of the most brilliant minds from around the country. They were rarely turned down. With these scientist, they were able to create technology that could help locate metas based on algorithms from past hunts and the sanctioned metas. A list of possible "elevated humans" from this algorithm was made and released to the press. They asked these people to turn themselves in for testing and for the citizens of central city to report any sightings to the Organization. It took less than a month for the capture rate to increase once again.
But the Organization was greedy and they knew that algorithm wouldn't be able to find every meta in the city, especially those who were smart enough not to follow in the footsteps of their brethren. Lucky for the hunters, a concerned citizen gave them their biggest break on the two most wanted metas in the organization.
Thanks to a nosey neighbor, Caitlin Snow was reported as possibly showcasing strange abilities. Being one of the few scientist to turn down the Organization down, she was put under secret surveillance. They didn't have to wait long. The young doctor caught on a traffic camera using her powers to save a child about to be hit by a car and they discovered her to be non-other than Killer Frost. The hunters immediately outed Dr. Snow out to the public as the frosty villain. They didn't dare make a move towards her themselves because of her connection with the Flash, Kid Flash, and another meta who called himself Vibe. The hunters hoped that with her secret identity revealed, Killer Frost would slip up along with her companions.
Not a single soul saw Caitlin Snow after that. When the CCPD raided her home, they found it almost completely empty. The only thing left was a black mask and note, warning them not to pursue her any longer. They would never find her. That night the Organization learned they're system had been hacked and their file on Caitlin Snow was gone.
Once the Organization realized Killer Frost was in the wind and had no leads on her ware bouts, they went after the other heroes she ran with. They used what little information they still had on her to look into those close to her. It took several interviews with neighbors and citizens from the tip line they had a large lead on Caitlin Snow's boyfriend. A C.S.I. for the CCPD known as Barry Allen and quickly became the lead suspect as the Flash.
The file on Barry Allen they collected basically confirmed what the organization believed. Mother was murdered when he was young and later fostered by a cop, driving him to work within law enforcement himself, wanting to help others. Struck by lightning during the particle accelerator explosion and went into a nine-month coma. Not soon after he awakes, the red streak appears. He even has the same lanky build of the Flash. How no one connected the dots until now, amazed them. But at the same time, the Flash was believed to have several connections not just in law enforcement, but in the press and technology. It also helped that at the time Central City saw the scarlet speedster as a hero and saw no reason to unmask him.
Now it made perfect sense why the Flash would protect Killer Frost after her incident. The ice queen was his lover and Caitlin Snow wasn't the type to cheat. Simple conclusion: The Flash and Barry Allen were the same person. All they had to do was catch him off guard, capture him, and use Dr. Snow's love for the speedster to bring her out of hiding. The hunters believed Barry Allen had no clue they were on to him, but what they didn't realize was someone had already tipped him off and had followed Killer Frost into hiding. Two weeks later, in a desperate attempt to lure the hero out, the Organization unmasked the Flash to Central City. At the CCPD, Captain Singn leaned back in his chair, smirking as he watched Allen's face fill the television screen, his biggest secret finally revealed to the world.
It didn't take very long for Captain Singn to figure out the young crime scene investigator was the Flash. To him it was obvious with the kid waking up from a coma and the red blur appearing around the same time. Also, Allen wasn't the greatest liar, but Singn never voiced his knowledge. He liked the kid and he was an amazing hero, even with Central City not thinking straight. Sing also knew the brunette doctor who Barry dotted on with every part of his being, was Killer Frost. He made it obvious after he stood up for frosty meta human. The Captain believed Barry when he said Killer Frost wasn't evil, that what happen was an accident, but very few listened. He was dragged into hunting the poor woman down, using every lead possible, but at the same time made sure no one ever came too close. For a very short while it worked, but then he caught wind of the Organization looking into Barry Allen. Captain Singn knew it wouldn't be too long before his secret identity was revealed. He gave the kid a heads up and suggested he disappear before word got out.
Barry Allen was reported missing a day later by Iris West
Iris West knew of course where Barry really was and despite the breaking news of his secret identity she tried make the citizen of Central City see that someone did care and metas were humans who were loved by others. Iris and her family were immediately turned on. Protestors showed up at their house demanding they turn themselves in for helping a wanted "criminal". Joe and Iris both lost their jobs, while Wally was kicked out school. The police tried to bring them in for questioning and possible arrest, but like many others they went into hiding fearing for their safety.
After the West family went to ground, things in Central City became quiet for a bit. All possible leads on the Flash and Killer Frost eventually became dead ends. They knew the two were still in the city, thanks to their deal with A.R.G.U.S. to protect the borders of the city. Anyone coming in or out of the city were checked at gates while satellites watch the surrounding area for those trying to enter or exit in non-conventual ways, like "Flashing Out". If anyone tried they were immediately taken out with specialized weapns, but so far, the Flash or his known companions haven't put a single foot outside the city. So, the hunt for the Flash and Killer Frost came to slow halt, but only for a short while.
A month after the disappearance of Barry Allen the files of one Dr. Haley Jones were leaked to the Hunters. The doctor had recently been outed as a meta and was known to have helped several meta-humans. Haley was a brilliant and truly kind doctor. She ran a free clinic, while also working with Caitlin and team Flash. Thanks to the wave of dark matter from the particle accelerator Haley had the ability to read, control, and manipulate minds. She can erase and create memories and even project her own thoughts directly to another person. Her powers came in very handy for not only her field of work but for Team Flash as well. With everything done within the mind, her powers were not as obvious as the Flash's or Killer Frost, so it was huge surprise when the hunters came to her house demanding she come back with them for testing. Haley knocked them out and ran. To this day, she still has no idea how or who outed her.
After Dr. Jones escaped the hunters, her clinic files were hacked and sent to the hunters out of concern on what was found. Most the data were average medical information on average humans, but the rest contained reports on several metas, including a one Dr. Caitlin Snow and the child she was carrying. The child with two meta parents, the first of its kind and the hunters were willing do anything to get their hands on it.