After discovering the true perpetrator of the bus crash, Veronica is desperate to warn others before it's too late. However, she inadvertently puts herself and her loved ones at risk in the process. Meanwhile, Keith tracks down Woody in hiding, Wallace leaves for Paris to be with Jackie, and Weevil again runs into trouble with the law.
What promises to be a simple case of finding out who ran over a classmate's dog turns into a startling revelation when new secrets about the bus crash come pouring out and Veronica finds herself again revisiting Lilly's murder case. Meanwhile, Wallace and Jackie try to turn their relationship around the corner, and the PCHers turn to Weevil for protection from the Fitzpatricks.
Overcome with guilt and frustration, Weevil asks Veronica for help to bring Felix's true killer to justice, but realizes he may have to take matters into his own hands.Meanwhile, Keith reviews a strange DVD that Woody receives in the mail, and relationship troubles brew between Wallace and Jane, and Mac and Cassidy.
Wallace's new girlfriend Jane enlists Veronica's help when her older sister Heidi appears to be a "runaway bride," but the clues suggest something possibly more disturbing happened on the way to the altar. Meanwhile, Keith and Veronica decide that they have no choice but to go to Sheriff Lamb with the evidence they've uncovered about the bus crash. Later, Kendall has a tempting offer for Aaron Echolls.
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.
Deciding to give Jackie the benefit of the doubt since she's dating Wallace, Veronica tries to help Jackie determine who stole her credit card, leading Veronica to appear on a psychic's community access show to pursue a lead. Meanwhile, Wallace confronts his mother Alicia about who his real father is. Later, Veronica learns of a voice mail recording from one of the students that died, made at the moment the bus crash.
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.
After the summer fireworks caused by a dangerous confrontation with Lilly Kane's murderer and a surprising visitor at her door, Veronica attempts to settle into "normal" life, complete with a new after-school job and a return to the popular fold at Neptune High, but she gets pulled back into the investigation business when Wallace is kicked off the basketball team for testing positive for drugs.Meanwhile, Keith sits down with reporter Julie Chen to discuss his new book on the Lilly Kane murder, "Big Murder, Small Town." Later, after seeing his father arrested for murder and being charged and tried for murder himself, Logan seeks refuge from the paparazzi and relaxes poolside at the Casablancas mansion with buddies Dick and "Beaver" and their sexy stepmother Kendall.