The body of a victim is found in a frozen lake. Booth identifies the body as a rival hockey player, making Booth a suspect in the crime. Now the Squints have to work with a new agent to solve the crime.
The Gravedigger returns and captures Booth. He wants the evidence that someone has stolen from the case, and he believes that Bones has it. Can the Squints find their friend before Booth becomes the Gravediggers latest casualty?
Booth asks Bones to fix his back again, but she ends up aggravating his condition. While Booth is sidelined, Bones works with Agent Perotta to solve the murder of a woman who was working at a Fantasy convention.
Remains are discovered by a newly wed couple after they literally take the plunge. The squints soon determine the identity of the victim, but discovering the cause of death presents interesting dilemmas as a mysterious corrosive foam secreting from the bones is destroying the remains and causing the Jeffersonian's alarms go off with each test they try. Also, Bones tries to work on her interpersonal skills.
The flattened remains of a woman are found in a recycling plant, leading the team to a wedding planner, the woman's fiancee, and the owner of an online dating service. As the Squints work to solve the case, Bones and Booth are at odds when it appears that someone they know is cheating on a friend/colleague.
Skeletal remains used by a Norwegian Black Metal Band lead the team to explore the underground music scene. Gordon-Gordon prepares to retire from psychology, but not before meeting with Sweets and helping Bones and Booth solve their current case.
Bones asks for Booth's advice on which of her assistants she should hire. Booth gets a call from a friend, a Japanese cop who Booth once worked with in an exchange program, who asks him to check on his sister. Unfortunately they locate her head. Now the squints must locate the body.
The remains of a college student are found in a mascot costume from a rival college. As the squints investigate how the body got in there, Booth finds out what his brother plans on doing with his life after his court martial.
Bones returns from Guatemala as Booth is finally cleared for duty; Booth is anxious to prove he's fully recovered, even accepting help from Angela's psychic. Things take an interesting turn when the psychic informs them that there is a mass grave underneath a fountain.
A diamond courier carrying a briefcase is killed. State Department requests discretion while investigating due to National Security concerns. Meanwhile, Wendell loses his scholarship, and Booth tries to relearn plumbing techniques.
A corpse found roasted in a neighborhood party barbecue pit is identified as missing dentist Kurt Bissette. He had not only upset neighbors with his windmill and by nearly poisoning the gay couple's dog but probably was a blackmailer. Trey Johnson, the owners society's handsome young gardener, isn't the only one enjoying residents' infidelity, which isn't the only possible secret or motive either. Meanwhile young Parker seems worried about Booth's lack of female company. Sweets figures out why Arastoo faked his accent.
Brennan and Booth are called to investigate what appears to be charred human remains on an electrical fence. The mysterious corpse is later determined to be a mummified Egyptian royal on loan to the Jeffersonian. The anthropological mystery has Brennan in a tizzy, and when the Jeffersonian curator prepping the mummy for exhibition is murdered, the team suspects foul play. Brennan's investigation of the curator sheds new light on the life of the Egyptian royal, turning their case into one of historic proportions. Meanwhile, Brennan goes on a date with Booth's ...
The weird face of a hydrogen sulphate-affected corpse, found floating in a river fits Nick Rabin, head of personnel at industrial chicken farm Clucksten, which is opposed by John Collins's animal rights campaigners and baker Roy Meyers's group of smell-bothered neighbors. Nick's severed thumbs and toes were used at protests elsewhere. His widow, Gaynor, anonymously helped Josh. Meanwhile Booth worries about his character judgment instincts and Angela is emotionally obsessed with 'saving' a piglet.
Booth, still suffering some lingering effects from his brain surgery, has to get re-certified for FBI marksmanship, but is not the accurate shot he was before going under the knife. Meanwhile, the team at the Jeffersonian investigates the remains of a little person discovered in a sinkhole. The victim, Bryce DaFonte, also known as "The Iron Leprechaun," competed in a popular wrestling league, but the popularity of the franchise left him with many enemies, including bitter competitors and scorned lovers, any of whom could have caused his downfall.
In Howard Fileman's house, which is for sale, estate agent Katie Selnick and two prospective buyers discover a corpse, charred except for a fat foot. Clever forensics gradually show it was actually two people, a fat man and PricoCo saleswoman Meg Tracy, who recently lost half her excessive weight and met her lover in a fetishist club. Seely however is greatly distracted by a surprise visits from 'pops' Hank Booth, who left his retirement home after hitting a male nurse and now tries to 'correct' Booth's life, but rather lost control of his own.
Mailman Steve Rifton's corpse is found in frying fat, hence extremely decayed over two weeks. He was reported missing for three months. The highly intelligent man's passion was the computer game Punky Pong. He recently lost the world record, which was bitterly contested. Both motive and means require several theories based on forensic findings until things start fitting. Meanwhile Jeffersonian intern Colin Fischer gets three Avatar tickets, which also excites Hodgins and Sweets, so they cover for each-other to take turns standing in line for the best seats. Colin's ...
When a man dressed as Santa Claus blows himself up during a botched bank robbery, Brennan and Booth work to identify the bomber and determine his motives. Meanwhile, Brennan makes plans to spend Christmas in El Salvador, but her father convinces her to spend the holidays with him and Margaret Whitesell, a newly discovered distant relative.