Mega City Air-Traffic Control System is attacked by HeatMan, causing a collision between two planes. Mega Man and Rush save the falling plane. Megaman under is civilian identity Rocky Light, is trapped into a fight with Blotz Brothers. Dr. Wily appear and stop the Blotze, he is revealed their uncle an an old friend of Dr Light.
Rock is picked up by Dr Light at school and they talk about human-machine relationship. An other robot with the independent determination is alluded. When they arrive, a group of robot, calling himself 'Multi Man' attack them, seriously damaging Auto and capturing Megaman.