As we all know, last season, we were left off with a broken-hearted Seeley as Temperance (Emily Deschanel), along with little Christine and dad Max Keenan (Ryan O'Neil), leaving him and becoming a fugitive. Now, for those who haven't watched the previous season, Bones (Brennan) became a fugitive after killer-slash-computer-genius Christopher Pelant kills Ethan Sawyer and covers his tracks by making it all appear to be Brennan's doing. As a result, Brennan becomes THE murder suspect and Booth (David Boreanaz) was moved from his position in Major Crimes Unit to a simple FBI desk job due to conflict of interest.
Episode opens with a blonde Brennan carrying Christine on her lap (whose now three months older), showing pics of her "Dada" Seeley Booth. Seconds later, Tempe's father, Max comes in and tells her it's time to go. Seems that they have been there for too long that the FBI (or Pelant) may be catching up on them already.
Angela Montenegro has been obsessed for the past three months in cracking Pelant's code so Brennan can finally be cleared, and return to the Jeffersonian and of course, in Booth's arms.
Since Brennan is a wanted fugitive, with her father as an accomplice, the FBI's been trying to track them by checking up on Seeley periodically. But, as usual, Booth has no idea as to where his baby-momma and baby is. So the talk with Special Agent Hayes Flynn, the guy who replace Booth in Major Crimes, ended up with nothing but Booth's blabbing about who they should be checking up on--Brennan or Pelant. But since we all know how brilliant Pelant was into hiding his tracks, the FBI can't point any of the evidences to him. Thus, Booth becomes Pelant's stalker just so he can get his family back from hiding.
While Bones is out, someone has to keep her seat warm in the Jeffersonian. Enter Dr. Clark Edison. You know Booth's sort of assistant last season? Yea, he got promoted by Cam to fill in Brennan's big shoes in the lab. However, Hodges and Angela aren't delighted with the turn of things. Angela Montenegro says it's fine that Edison's taken over, BUT he could have said no into having Brennan's office. Oh and the binders! Yea, everyone's not happy about that too--including Dr. Cam Saroyan.
Now, the FBI was called by an "anonymous caller" (read: Temperance Brennan) due to an uncovered body dump in Pitt Meadows of what seems to be a person who was a part of Christopher Pelant's past. Brennan has been trying to investigate on the body, pin it to Pelant, along with the rest of the murders. Before Brennan leaves the dig site, she left something for Angela (yes, they were communicating the whole time!). She left her a snow drop flower, a sign of hope. As Angela has put it, solving this case would finally bring her back home.
Now, as we all know, Booth has been under investigation by the FBI. All calls, emails and whereabouts are pretty much monitored. Cam had this brilliant idea of sending Booth an email regarding new case. But more on that later.
Back to the Pelant. Seems our genius murderer has also caught up with Brennan's clues and is tracking her down as well. Apparently, the victim uncovered in Pitt Meadows was once a guidance counselor in Pelant's high school, making it more evident that Pelant may have killed her. So crazy-ass Pelant hacks into the Jeffersonian to find out who the uncovered body was. He finds out it was one of his previous victims, Carol Morrissey.
The search is on for Bones and the whole team, including Sweets, is now being checked up on by FBI. Sweets, however, is adamant he had no knowledge of Booth's or Brennan's whereabouts nor any idea on what's going on with Booth lately saying he would know because Seeley "doesn't want him to lie" to the FBI. Oh the codes!!! Everyone is soooo damn clever!
Now remember the snow drop and Cam's email? Seems to me, Booth got smarter while lady Bones was out. The snow drop appears to be a code for him to meet Bones in the SNOW DROP MOTEL. After a testosterone-filled combat between Booth and Bones (he didn't know it was her, so yea, they fought), comes the love fest. Three months of not seeing each other. You know what happened next! *wink, wink* So turns out, Brennan and Max were searching into Pelant's history and discovered that his guidance counselor went missing for no reason. Incidentally, Pelant needs a good high school recommendation letter to get into his dream college university--Stanford.
Back to the Jeffersonian. The team is trying hard to uncover the mystery behind Morrissey's death. They have proved how Pelant has made Caroline Julian's bank account got hacked and is now back in the case too. So Sweets and Julian is investigating on Pelant's history with the victim and learns that Pelant got in trouble back then for hacking into the schools system to forge a recommendation letter to make him look like a saint. Sweets figured out through the letters' idialect that Pelant's language pattern, his psychological fingerprints, were all over his letter, proving he forged his recommendation to Stanford and killed his guidance counselor when she finds out what he did.
Hodges finally learns that wifey, Montenegro, has been communicating with Bones the whole three months she was out, by sending flowers to each other. Every flower has a meaning and they send out those as a code. Hodges helps out Angela by sending a flower to a grave at the cemetery and sees Pelant, who has found out the codes. Hodges threatens Pelant and he taunts him back, saying he can never harm anyone. Unfortunately for Pelant, Hodges has changed due to the turn of events.
Flynn finds out that Angela has been in communication and is now back to investigating the team. Angela confesses of how she communicates with Bones through flowers. She tells Agent Flynn that she was sending the flower to let Brennan know that she has finally figured out how Pelant has framed her into killing Ethan Sawyer.
So Max comes to the graveyard and tells Pelant (who he knows is hiding somewhere) that he's not gonna lead him to his daughter. He says that if in case he wanna follow them, they're headed for the Mexican border, leaving Pelant furious.
So Hodges admits to Sweets of his recent interaction with Pelant (which he didn't admit to Flynn) and his murderous intent, that he just discovered. He tells Sweets, while in the elevator, that he almost chokes him to death until he snaps back into reality and thought of Brennan. Had he killed Pelant, there would be no way in hell now that they can help her clear her name and will be in more trouble than she is now. He says that he has discovered that part of Pelant wants to die. That while Hodges was choking him, he had this look in his eyes saying "do it! do it!".
Saroyan and Edison are investigating on the remains of the victim. Cam apologizes to Clark, knowing that once the case has been solved, he knew that soon he'll be back to his old position. She also thanks him (implied) for not sucking at his job, though he know that he'll someday give back Brennan her old position, and in turn might demote him, putting him back as Brennan's assistant in the lab.
Now that Max has figured out that Pelant has finally known of Booth's whereabouts, he uses Booth's car (which he bought under Dr. Edison's name), and makes it appear to have been stolen by him. He says that what he did was traceable, and that Pelant is now hot in finding them. So Max takes the car and Booth tips Flynn of where Max is headed to so the FBI will track him instead. However, he finds out that he's the second person to tip the car's whereabouts, and learns that Pelant was on to them. Booth throws away his phone so no one could finally trace him.
While Booth and Brennan, along with baby Christine, heads back to the Jeffersonian, Hodges asks Cam to leave, take ALL the employees with her, and turn off the security system. He'll be "working" overtime and will be looking after the whole lab while he's there the whole night and "see somebody you shouldn't see". Yes, that's code for "let's bring in a fugitive to solve the case"! Cam immediately closes up the lab, takes Edison out, and gets all employees--including the security guards out of the Jeffersonian just so Booth and Brennan could come in, without anyone knowing. Minutes later, when the coast is clear, Hodges and Angela lets them in and finally Angela reunites with BFF Tempe and her god daughter Christine.
Sweets comes in as he was called by Booth to protect everyone in the lab since he's got a gun and is quite a good marksman. Booth leaves for FBI office to show Flynn proof of how Pelant has hacked the Jeffersonian and the FBI network to buy them time while Brennan and team solves the Morrissey case.
Brennan proves how Pelant has killed Morrissey, saying that Pelant has tampered his high school photos online. Apparently, Max went to Pelant's old school and finds out through an actual paper yearbook that Pelant was once a 200-pound-kid, unlike what they see on the online copy of the yearbook. So Brennan explains how Christopher Pelant has killed Morrissey and what weapon was used (thanks to Hodges), pinning Pelant to the murder. They have also finally cracked the code Sawyer left on his wall and connects Pelant to his murder as well, leading to his arrest. While Seeley and Max watches FBI drags on Pelant, Max tells Booth that this guy needs to be killed knowing that he'll be back in no time (dun dun duuuun!!!).
Now that the gang's back. Special Agent Hayes Flynn relinquishes his position in Major Crimes, turns it over back to Booth, and moves to Domestic Terrorism. Caroline Julian announces that Brennan is no longer a suspect to Ethan Sawyer's death and that she can finally resume to her position back at the Jeffersonian as its Medico-legal laboratory's forensic anthropologist. Cam, later announces that they'll be needing another forensic anthropologist, who will be working on serious archaeological work. Booth confesses that he has been mad at Montenegro in the past three months as she is the only one who have knowledge of what's going on with Brennan, but also thanks her and the team for bringing his family back together.
Unfortunately, Pelant's one lucky bastard. Bones and Booth were called at the FBI late at night and learns that Pelant is not who he they all knew he was. Apparently, he was from Egypt with the name Bassam Al Fayat (I think that's how it's spelt!) and then moved to the United States under a different identity. He has been taken by the Egyptian government that night, but not without leaving Bones and Booth something to haunt them. He gives Brennan a marigold, and she slaps him. Hard. She says marigold is a symbol of pain and grief. Something tells me we haven't seen the last of Christopher Pelant--er Bassam Al Fayat. And I think upon his return, Hayes Flynn will be back as well, as we see him pick up the marigold flower in the last scene.
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