A/N: This is my first attempt at a crossover fanfic, so please bear with me. This idea came to me while I was watching the newest episode of Bones last night.

As for a timeline, this story is completely AU. All dates/years in the world of Fringe should be disregarded, because my story is based in the current timeline of Bones (post "The Purging of the Pundit"), but it's late season 2 Fringe (post "Northwest Passage"). In my story Olivia and Peter are NOT in an established relationship, and instead of Peter going to the 'other side' with his biological father, he stays in Blue!Verse. Basically in my story, the final scene in "Northwest Passage" ends before Newton and Walternate arrive. Also, in my story, Olivia never found out that Peter was in Washington state. Anyway, let's just say for argument's sake, that the end of this episode coincides with the current Bones universe. :) I hope that wasn't too confusing! I have to have the story-lines line up this way in order to make my story work.

EDIT: As of February 8, 2018 I am redoing some parts to this story and fixing some mistakes that I found after re-reading. I also will be finally adding more chapters as soon as they're written! I've had a lot going on in my life and haven't been able to focus on writing for a while. I figured a little revamping this story was in order since I can't remember where I was originally leading with this, so hopefully the partial re-write will be worth it!

~Prologue~

The night was cool and dreary, with a storm looming overhead if the thick clouds were anything to judge it by. The wind fiercely howled through the trees causing FBI Agent Olivia Dunham to pull her jacket collar up closer to her neck, but not before it caused her to involuntarily shudder. She huffed warm air into her palms and rubbed them together briskly. She sped up her pace as she aimed herself toward the door of the Kresge Building at Harvard University. Once inside she walked down the corridor towards the basement lab belonging to Walter Bishop; an eccentric biochemist who spent 17 years in a mental institution for the accidental death of his lab assistant. Now he works as a Fringe Science consultant for the FBI, and Olivia Dunham is his handler.

She walked into the lab and over to where Astrid Farnsworth stood, pouring through notes on the computer. Astrid is a Junior FBI Agent who was assigned to be Olivia's assistant, but spends most of her time babysitting Walter.

"Where's Walter?" Olivia asked Astrid.

"He's in his office with 'Brown Betty,' if you get my drift..." remarked the junior agent.

Olivia nodded and shoved her hands in her pockets, which those who knew her knew it meant she was losing her patience; she turned on her heel and walked towards Walter's office. She stepped inside the office to find exactly what she expected to find. Walter was sitting back in his chair holding his bong. "Put that away, Walter." Olivia demanded.

"It's helping me cope." He replied demurely.

"You know I'm a Federal Agent. Marijuana is against the law." When he made no move to put it down, Olivia slammed her hands down on his desk hard enough to make her palms sting. "Dammit, Walter! Put it away, NOW!" She was angry. Peter Bishop, Walter's son (or so they had thought), had disappeared from the hospital several days ago after nearly becoming vaporized by on a bridge. Nobody had seen or heard from him since. Peter had recently found out that he wasn't of this world; he actually came from a parallel universe and was stolen by Walter Bishop in this universe at the tender age of seven. Peter had a rare genetic disease which had no cure and was very rare. In his universe, Peter Bishop died at age seven from the disease. Walter had a portable window he created over 20 years ago, it was used as a window to see into the other universe, which was just like our own only different. In that universe, Walternate (Walter's nickname for his counterpart) had found the cure, but was distracted by a bald man in his lab. Walter saw it though. The only way to save Peter from dying again was for him to use a device he created to cross over into the other universe and give the other Peter the antidote; however, the antidote bottle broke when he fell immediately after crossing over. Because of this, the only way left to save Peter was to take him home to his universe and give him the cure. Walter had intended to return Peter but out of selfishness and desperation to have his son back he never returned the boy.

When Peter found out where he was from, he was furious. He had every right to be. His entire existence here was built on a lie. Over the past two years of working together, Olivia had grown attached to Peter. She had intended on going out on a date for drinks with Peter one night after a case, but because of her abilities, the moment was ruined. Olivia had been tested on by Walter as a young girl with a drug called Cortexiphan. The drug was meant to give abilities to children to help them fight a coming war. Because of this drug, Olivia had recently developed the ability to see things from the other universe that didn't belong in hers. A glimmer. Only objects from 'over there' glimmered, and Peter was one of them. That's how Olivia found out about Peter.

Walter, shocked by Olivia's outburst, put the bong away and looked at her tentatively. She was losing her patience with him, but did he blame her? She'd been run ragged for the past several days trying to track down HIS son, while he was here toking on his bong.

"Do I have your attention now?" She spat venomously.

He nodded.

"Good." She stood up straighter and motioned for him to leave the office with her. The two of them walked over to where Astrid stood. "Okay, so I've followed up on every lead I've had and I've still got nothing." She sighed and ran her hand through her hair. That was one of her tell-tale ticks she exhibited when she was frustrated.

She continued, "But I talked to Broyles, and apparently he talked to Peter two days ago but never bothered to tell us. He won't tell me where Peter is, or anything useful, just that Peter asked him not to mention anything to us." She let out a resigned sighed and dropped her arms to her sides. "I don't know what else to do... either of you have any ideas we haven't thought of yet?"

Both of them shook their heads. Astrid patted Olivia on the arm reassuringly. "I'm sure he'll come back. He probably just needs some time to think about everything."

Would he come back? Olivia wasn't so sure because Peter knew how to disappear. What's to say he wasn't already back in Iraq, where she dragged his ass back from when she first met him, begging him to come and help her save her partner and lover John Scott. Losing John had been hard enough for Olivia, and now the prospect of losing Peter was unbearable. That's how she realized her true feelings for him. She had loved John, but wasn't nearly as devastated by the prospect of losing him as she currently was with the thought of losing Peter.

She had to find him one way or another, even if it killed her. With that, she tightened her jacket around her once more and left the lab without another word or glance back. Determined, she went back out into the chilly night and headed for her black Government issued SUV. She unlocked the vehicle and opened the door, but before she could get in the sting of something hard slammed into the back of her skull. White-hot stars shot through her vision as she succumbed to the darkness and crumpled to the ground.

A/N: AAAAAND there's the first chapter! Well, the Prologue anyway. We're about to jump into Bones territory next.