On the day of James Kirk's birth, his father dies on his ship in a last stand against a mysterious alien vessel. He was searching for Ambassador Spock, who is a child on Vulcan, disdained by his neighbors for his half-human nature. Twenty years later, Kirk has grown into a young troublemaker. He is inspired by Capt. Christopher Pike to fulfill his potential in Starfleet, even though he annoys his instructors. Suddenly, there is an emergency on Vulcan...

As the power of the island to both heal and destroy comes into sharp focus, the lines between good and evil are blurred and loyalties are challenged when the survivors of the crash become tangled within the lives of the Others.

When the crew of the Enterprise is called back home, they find that an unstoppable force of terror from within their own organization has detonated the fleet and everything it stands for, leaving the world in a state of crisis. With a personal score to settle, Captain Kirk leads a manhunt to a war-zone world to capture a one-man weapon of mass destruction.