白赖仁野心勃勃，一心想控制人类，差仁者领袖虎大介杀死了菊池博士，抢走了万能的“赤盒”，伹他却打不开。得知音乐家高比能打开盒子，他遂派人将其生擒。与此同时，菊池的学生女忍者香也在追杀高比，而令一面，芭蕉先生派爱徒小灵则暗中保护高比。三路人马狭路相逢，展开龙争虎斗，最终小灵杀出重围。芭蕉夜入白府盗赤盒不成，反被虎大介取走性命，并连累村民惨遭屠杀，于心不忍的高比以自刎相威胁，总算中止了白赖仁的屠夫行径。高比以乐曲为钥匙打开了赤盒，白赖仁惊喜万分，以为掌握了控制人类的秘笈。但小灵、女忍者香能就此罢手吗？

A scientist discovers a chemical that can be used to make a great cure or a great virus, and a criminal sends ninjas to steal it and kill him. When they can't open the container, they go hunting for 'Copy', who (unbeknownst to him) holds the key to the box. The scientists' own ninjas want to stop them by killing Copy first, and only a small peace-loving village of ex-ninja want to stop the bad guys without sacrificing Copy's life.