In an effort to help Wallace's new crush Georgia, who was duped out of her money in an internet scheme, Veronica must outwit a group of computer "thugs," known as the Silicon Mafia.

Meanwhile, Keith makes Veronica introduce him to her new boyfriend Troy before allowing her to go to the homecoming dance with him. Later, Logan helps Duncan edit together a memorial video for a school dedication ceremony marking the one-year anniversary of Lilly's death. The dance and the video bring back Veronica's memories of when the four of them were friends.

When Weevil's poker winnings go missing after a game at Logan's place, Veronica questions each player to piece together the evening's events and catch the thief. Meanwhile, on the eve of the Echolls' annual Christmas party extravaganza, Keith is hired by Lynn Echolls to track down one of her husband Aaron's potential stalkers.

Following an emotional reunion with her mother, Veronica is hired to track down Neptune High's beloved mascot, Polly the Parrot, which was apparently kidnapped by a rival school on the eve of a big basketball game.

Meanwhile, with her suspicions about the Kane family rekindled, Veronica attempts to gain access to her father's original interrogation tapes. Later, Veronica's relationship with Deputy Leo heats up, as does Meg's relationship with Duncan.

Determined to get to the truth behind who drugged and assaulted her at a party the year before, Veronica questions her friends and many rivals about the chain of events that night at Shelley Pomroy's house. Meanwhile, when one of Veronica and Wallace's stunts affects her job at Kane Software, Alicia confronts Keith about his daughter's behavior. Later, in an attempt to get closer to his son, Aaron throws a birthday party for Logan that inadvertently surprises everyone.

After tragedy strikes Neptune, Calif. and the local sheriff rushes to judgment, an emotional Veronica attempts to help a grieving family member rule out suicide as a contributing cause in the calamity. Meanwhile, Wallace offers to help transfer student Jackie Cook, the fiery, flirty daughter of professional baseball player Terrence Cook, track down the person who damaged her car in the school lot. Later, mayoral candidate Woody Goodman asks Keith to consider running for sheriff.

Veronica and Duncan discover that the still-comatose Meg had been babysitting an abused child, leading Veronica to take on an unfamiliar role as a babysitter to determine the kid's identity. Meanwhile, Kendall continues her affair with Logan as her stepso

When the profits from the Neptune High Winter Carnival go missing, Veronica finds herself defending Jackie from the condemning teachers and students. Meanwhile, Keith meets with her father, Terrence Cook, after he is accused of playing a role in the bus crash, and Logan initiates a new relationship while Beaver continues an old one.

Veronica begins having dreams involving the dead students from the bus crash, who drop clues along the way. Meanwhile, Logan and Wallace become unlikely lab partners in Mr. Wu's class, and Keith helps Clemmons expose a doctor's scam.

Veronica takes the stand in Aaron Echolls's murder trial, and is distracted during final exams while waiting for the verdict. Meanwhile, Keith takes new evidence about the mayor to Lamb, and Weevil asks Mac and Cassidy for help to pass algebra.

The campus newspaper hires Veronica for an undercover expose on the Zeta Theta sorority sisters during rush week to investigate Parker’s rape. Veronica begins to realize though that not everything is as it appears in the sorority house. Logan and Wallace take part in a challenging Sociology class role-playing experiment as prisoner and prison guard, and Keith treks through the desert after escaping from the scene of a crime.

Logan gets a big surprise when he hires Veronica to find the source of his missing inheritance, which escalates from weird to worse. Meanwhile, Dick's fraternity asks Veronica to prove their innocence in the campus rapes, and Keith helps an old acquaintance prove her husband is cheating.

Keith and Veronica are hired to help find the missing grand-daughter of the founder of Hearst College, whose swing vote could spell the end of fraternities and sororities at Hearst. Meanwhile, Logan fears for Veronica's safety as she gets closer to the truth regarding the campus rapes.

Veronica is hired to track down a one-night-stand, but the situation becomes more complicated when she turns out to be a hooker. Meanwhile, Keith continues his investigation in Dean O'Dell's death, and a visit by Madison Sinclair causes trouble for Veronica and Logan.

As the end of the first semester at Hearst College draws to an end, the election for sheriff in Neptune comes to a close and Veronica and Piz discuss the effect a summer apart will have on their relationship.

Veronica and Keith launch their investigation. Their involvement puts Police Chief Langdon on edge. Penn goes public with his theory on who the bomber is. Meanwhile, local teen Matty Ross begins her own search for her father’s killer.

Veronica debates coming clean to Nicole. Veronica’s fidelity is tested. Veronica and Keith discover they aren’t the only ones who believe they’ve found the bomber. A surprising potential client tries to hire Mars Investigations.