Seeley Booth and Temperance Brennan are called in when a decomposed body is found in a local alley and the cause of death is unknown. Their investigation reveals the body is that of a teenage boy whose only friends were his beloved comic books.
An El Salvadoran gang member is stopped with the dug-up corpse of a young woman in the trunk of his car. Booth and Brennan find out that the woman was buried at a soon-to-be excavated community garden, and they soon find that a second body is missing.
When a human arm is found inside the stomach of a black bear, Brennan and Booth travel to Washington State to investigate. They search a small town for clues and discover that ritualistic cannibalism is involved.
When Brennan is about to meet an online date at a local restaurant, she only barely escapes being the target of a shooting. Brennan is not deterred and insists on continuing all the investigations while she and Booth try to track down the culprit.
The remains of a young documentary filmmaker are found in a ventilation shaft in an underground tunnel. Brennan and Booth must venture into the maze of tunnels beneath the city and are surprised to discover a world of homeless shelters underground.
While on vacation, Angela contacts Brennan to ask for her help in identifying a skull, as she's afraid it's her boyfriend who left on a photo shoot and has been missing for days. Zack and Hodgins confirm that the victim died of a gunshot wound.
When a dead body is found clutching a 300-year-old finger bone, Booth and Brennan's investigation leads them to a dive site off the coast of Assateague Island where a pirate treasure may be buried. Hodgins participates in a dive.
When Brennan wakes up in the bathroom of her New Orleans motel room, she is bloodied, beaten up and her earring was ripped out of her ear. She doesn't know what happened or how she got there, and discovers she's lost an entire day of her life.
George Hagel, a 600-pound man, is admitted to the hospital after he is found in his apartment in a coma. While they conduct the necessary tests, the team runs into several obstacles due to the sheer mass of the patient.
House conducts a mini-experiment on the son of man who's been in a coma for 10 years, and the boy is left unconscious. When symptoms point to a possible genetic condition, House and his team must glean a family history from Kyle's only living relative.
House's newest patient is 18-year-old Jack, brought to the hospital after experiencing a heart attack and massive vomiting. Barely an adult himself, Jack has been the parent to his younger brother and sister since their parents died.
While Magnum waits for Higgins to decide if she’ll officially become his partner, he takes the case of a missing wife who witnessed her boss’ murder during a bank robbery. Also, Rick makes a big decision about his career.