Now back from Haiti, Dr. Suresh finds that his new lab in New York is Isaac Mendez's old loft. He finds the 8th of Isaac's paintings but it holds bad news for a major character. Claire is concerned that her classmate will reveal her secret but he reveals a secret of his own. Peter Petrelli assists his newfound friends and begins to question whether he wants to know his identity and his past. Still in 17th century Japan, Hiro forces the issue with Takezo Kensei in order to ensure that he lives up to his legendary status. Niki Sanders travels to New Orleans to leave Micah with a relative. Maya and her brother reach Mexico, but she has to get him out of jail.

Micah warms his way into his cousin's heart by using his powers. Matt gets closer to finding some answers surrounding the mysterious mark on Hiro's father's photo and asks Molly to help him. Nathan's mother confesses to killing Hiro's father, and Claire grows closer to the classmate who can fly.

Afraid of losing the love he thinks he's found, Peter denies his past and doesn't look in the box while an unknown woman tries to track him down. Parkman and Nathan are led to Philadelphia to track down Matt's father, unknowingly being led into a trap where Nathan stumbles into the city that blew up after all. Mohindar takes Molly to the Company in search of help for her, just as Nikki shows up, while another hero begins to discover her powers in Texas.

In flashbacks, we learn what happened to the heroes in the four months after the events at Kirby Plaza. Maja learns of her deadly powers at her brother Alejandro's wedding. Niki starts a Company-sponsored drug program but stops taking the medication only to realize that another hidden personality has emerged. Imprisoned by the Company, Peter Petrelli meets the now familiar Adam Monroe and we learn how he ended up in the shipping container destined for Ireland.

Peter Petrelli and Adam Monroe track down another founding member of the Company and learn the location of virus 183. Maya learns how to control her powers but Alejandro' distrust of Sylar leads to a deadly confrontation. Niki returns to New Orleans and tells Micah about her medical condition. When his backpack is stolen, Micah and Monica set off to retrieve it, but things don't work out as planned. Hiro decides to avenge his father's death and goes after Adam. Claire, grieving over her father's death, decides to go public with her powers in a bid to stop the Company.