The FBI becomes involved in the stalking of a popular singer after she is threatened by an intruder in her house and reveals a series of threatening letters she's received through the mail. Charlie determines the letters are from two different people after analyzing the handwriting. When a photographer is found dead near the singer's house, Don believes the photographer was murdered and his death is somehow related to the stalking case.

Don and Agent Weston of the NTSB investigate eyewitness accounts of a mysterious unidentified object flying dangerously close to downtown Los Angeles that has raised concern of a terrorist attack. After Charlie is recruited to help with the investigation, it is discovered that the flying object is part of a new technology that could revolutionize air travel. But the investigation takes a turn when they learn that the lead engineer is found murdered.

Don uncovers a secret code that begins the hunt for a skilled and trained assassin, and the efforts by the FBI to save the life of a Colombian exile living in Los Angeles.

Don and his agents are asked to investigate when a search team finds three dead women in the wilderness who were apparently murdered under bizarre circumstances. The case becomes more suspicious when Don learns the search team was led to the crime scene by a psychic. When the psychic offers to help the FBI in solving the crime, Charlie is determined to prove the psychic is a fraud.

Don and the team attempt to figure out what happened when a Chinese interpreter turns up dead.

One of David's closest friends is called into question after a man dies while boxing with him. When it turns out this is not the first time such an event has happened, things look even worse. Charlie is busy practicing what little he knows about poker, so he can take Larry's spot in a tournament.

The investigation into a professor's death takes a dangerous turn when the team finds their lead suspect has ties to a radical animal rights group.

Don and Charlie investigate the murder of a judge's wife who was shot in her garage. It's unclear whether she was the intended target or her husband, who was hearing a death penalty case involving a gang leader. As the investigation continues, Don reconnects with a prosecutor whose life may also be in danger.

When a researcher who specializes in Native American antiquities is killed at the museum where she works, the FBI is called in because the museum is on federal land.

In an effort to find the murderer of an Iraqi woman who had been making a documentary that promoted the rights of Muslim women, Don enlists the help of the victim's cousin. Through her cousin, Don uncovers a connection to Saddam Hussein. Back at home, Charlie rekindles a romantic relationship with a former girlfriend when she visits him while on a book signing tour.

When an ATF agent is found dead under unusual circumstances, Don wants to take the case, which revolves around an elaborate bank robbery, after he learns the victim was his former girlfriend. He then becomes quite introspective as he realizes the impact his career has had on his personal life and decides to turn his attention toward a new woman.

A California State Senator and a psychiatrist--neither have much in common with the other except for one thing...they both turn up dead on Don's watch. While the circumstances of their deaths are different, Don thinks the two murders are related, and tries to prove his hunch right. What he finds may bring to light a deep secret the government has been hiding for years.

An actor on his way to stardom finds himself in the middle of a murder investigation when a young woman is murdered in his house.

When a wealthy heiress is kidnapped, Don and the team race against the clock in hopes to find her. However, the motivations behind her disappearance aren't what they seem.

The team searches for a pair of limited edition sneakers after they are stolen from a foreign ambassador.

The team gets a last minute tip that could exonerate a dangerous mob boss who is about to be executed; Charlie tries to help the CalSci basketball team break their losing streak.

The Numbers team hunts for a gang of criminals who targeted an unlikely scene of the crime: a televised entertainment awards show.

A man wanted for stock fraud is found garroted in his apartment, and the crime is eerily similar to a murder committed a year earlier, a case in which Don closed when an ex-con confessed. Now, Don must re-investigate the old case to determine if he put an innocent man in jail. He asks Charlie to go over the evidence to see if he missed anything the first time around.

Don and his team are called in when a woman attempting to rob a jewelry store in Beverly Hills is shot by a security guard. Charlie assists the FBI by using the keyless remote from the woman's car to help identify her and locate the store owner's kidnapped wife and daughter.

Don and Megan are called to the murder scene when the CFO of a powerful energy company - who was about to testify against her fellow executives - is murdered at her home and her son is the only witness. Knowing there could be thousands of disgruntled ex-employees, Don asks Charlie to narrow the list.

Don and his team are summoned to locate the person who released potentially lethal gas in the city's subway system.

Megan feels responsible for an agent's death following an explosion at a meth house the FBI had targeted for a bust. When the kingpin eludes capture, it's discovered he may also be involved in child pornography when one of the photographs on his computer turns out to be a young girl in a sexually explicit position. The picture sends Charlie on a crusade of his own, as he remembers a girl he knew as a young child that he suspected was being abused, and he's determined to save the little girl in the picture.

An arsonist sets a fire at a car dealership that kills a sales person. The name of an extremist environmental group is spray-painted on the scene, but the group denies involvement. It becomes Don's task to determine whether the group or someone else is responsible. Charlie is called in to help figure out if there is a pattern to the fires that would help provide a profile of the arsonist.

Don and his team investigate an anti-war bombing outside an Army recruiting center that resembles the work of a 1970s anti-war activist who disappeared 30 years earlier after being accused of planting a bomb that killed two people. Retired Agent Thomas Larson, who tried to solve the case 30 years ago, returns to help but questions Don's loyalty when it is revealed Alan knew the radical activist and participated in demonstrations with him, thus causing tension within the family.

The FBI becomes involved when the bodies of young Asian girls are washed up on the beach. The situation becomes more critical when it is discovered one girl has avian flu. As the investigation continues, Don and his team discover a connection between the girls and the sex trade industry. Meanwhile, Amita considers a transfer to Harvard University, which causes Charlie to re-evaluate his feelings for her.