Dr. Wily rules the world, and Dr. Light is a shadow of whom he was. The first album was basically dealing with Mega Man learning about the story of Protoman, who believed that he could be a hero and save the world from Wily, but he finds a disheartened humanity and remains shattered, left for dead against the Robot Masters. Then, Mega Man resolves to do what Protoman couldn't, and he faces the same situation, except that instead of dying as a hero he rage-quits, angry towards a humanity that doesn't accept his work, while humanity starts to condemn him and claim him as to be their savior.
It chills your bones when Mega Man echoes the words of Protoman, saying "You are the dead", referring to humanity without spirit.
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