When Kennedy and Harper told Sherry and Jake to escape while they stayed behind to fight Simmons, Sherry gave them a chip containing information that could stop the C-Virus. Kennedy and Sherry were soon apprehended by the US military; Sherry was taken away and placed in protective custody while Kennedy was interrogated by His subsequent training as a government agent turned him from a simple police rookie into an expert special agent, proficient in weapons handling and close quarters combat.

Following his escape, he was offered a job in a US-STRATCOM team devoted to anti-B.O.W. Kennedy then shot the bike, causing it to explode and severely injuring Arias before he was killed by Chris. Kennedy then skillfully dodged Arias's attacks and even managed to kick Arias in his head. During the events of Resident Evil 2, Leon is a rookie police officer who arrives in Raccoon City for his first day on the job, only to confront the T-Virus outbreak first-hand. The agent returns to the church to find it most of the inhabitants dead, by the hand of JD. JD succumbs to the Plaga and attacks Buddy, however he is promptly killed by Kennedy. Harper tried to call out for Wong's help as Wong returned the favor, trying to slow Simmons down with gunfire. Noticing Kennedy's hesitation, she asked him what was wrong but he insisted it was nothing. As Simmons fell, his body mutated back into his human state just as he was impaled on the obelisk Harper and Kennedy passed earlier, bleeding him out from his wound. With the radio jamming ceased, Kennedy got in contact with a second government helicopter which launched an assault on the cult's militia before being destroyed by a rocket launcher on the Prophet Saddler's orders.The cult leader was himself killed by a rocket launcher with the help of Wong after Graham's rescue. The reason for this was not widely known, even to his lieutenants, and the villagers were more than willing to continue trying to kill him. Inside the compartment was a small data disk containing all of the evidence needed to prove that Simmons was behind the bioterrorist attacks, the evidence to ensure Kennedy's innocence. With Simmons dispatched, Wong bid Kennedy a final farewell before departing, though Harper urged him over their comms to go after her. When she tried to protest, Kennedy told her that President Benford would have done the same thing. Kennedy told Chris to find Sherry and Jake and rescue them and Harper overhears as Chris in turn told Kennedy that Wong was dead. Sumner, Christian; Shotten, Brian; Owen, Michael, eds (9 November 2005).

Kennedy refused, stating that he and Harper were sticking together. With a nod of approval from Hannigan, Kennedy approached and took Harper's arm, though instead of arresting her, he placed her gun in her hand.

Leon and Ada (レオンとエイダ Reon to Eida) is a file that can be found in Resident Evil 6. Watching Simmons' death, Harper spoke of her finally getting revenge for her sister as Kennedy suggested they get to the helicopter. Still greatly angered, he mutated into a new, gigantic form as he witnessed Wong circling overhead in her helicopter.

Harper realized that the files that Sherry gave them had something to do with it and as they looked over the files, she pointed out to Kennedy how the key to stopping the C-Virus actually lies in Jake Muller. As she and Jake made their escape, Kennedy and Harper open fired on The Family. What is known, however is that she successfully escaped the facility as it began to self-destruct, but lost the G-Virus sample. RESIDENT EVIL 6 HOW OLD IS LEON S KENNEDY IN RE6. Kennedy and Harper dismissed his remarks as Simmons became enraged and eventually succumbed to the effects of the enhanced C-Virus, his body rupturing and granting him the ability to mutate into a larger canine-like creature of bone and muscle tissue. Going inside, they found Simmons and his henchmen from The Family, and Sherry and Jake joined them shortly afterwards.