As everyone attempts to move on from the final battle with Sylar four months prior, a new sinister force begins stalking and murdering the older generation of Heroes, starting with Hiro's father.
Matt investigates the Nakamura murder, bringing in Angela Petrelli for questioning. She falls victim to an unseen assailant but the police interrupt in time to save her.
Upon his return to New York, Suresh is unnerved to find an undiscovered Issac Mendez painting that foretells death of Noah Bennet. Noah pursues his mission of taking down the company with Suresh and Matt and is equally disturbed by the painting.
Between shifts at a the fast food joint, Monica Dawson exhibits the ability to mimic physical actions she and stops an armed robber with a wrestling move she saw on TV.
In Ireland, Peter attempts to move beyond his past, but discovers that a mysterious woman, Elle, is willing to kill his friends to find him. After the attack on Molly, Matt and Nathan fly to Philadelphia to hunt down the "boogyman," who turns out to be Matt's father who abandoned him years ago and was a founding member of the company.
West convinces Claire to teach head cheerleader Debbie a lesson after she deems Claire too ordinary to join the squad. While Suresh faces a serious moral dilemma with the Company, H.
When Peter's time traveling abilities suddenly manifest, Peter and Caitlin get thrown a year into the future, and learn first-hand just how deadly the mysterious virus striking people with abilities can be as all of New York is under quarantine with millions already dead.
When the clock turns back four months for all of the Heroes, we discover what happened after the near destruction of New York. While Peter survives his detonation over New York City, the Company "bags" him as a threat to the world, and allows himself to remain captive while befriending Adam Munroe, the now immortal Takezo Kensei.
Convinced that the Company is close to finding them, H.R.G. prepares the family to run -- but Claire confronts her father and refuses. Hiro returns from the past and learns of his father's death.
After forcing the information from Victoria Pratt, Peter travels to Primatech Paper in Texas with Adam friend to destroy the virus, which will kill 93% of the world's population in the future -- or so he believes.
Deep below Primatech Paper in Odessa, TX, Peter's reunion with Nathan turns violent when the brothers, Matt and Hiro all clash thanks to Adam and his pursuit of the deadly Shanti Virus.