After an apocalyptic war between human and machines, the world is completely destroyed and without human life. The burlap doll 9 awakes without voice and finds a weird object in the middle of the debris that he brings with him. While walking through the ruins, 9 is attacked by a machine called Beast but he is saved by another doll called 2 that fixes his voice. 2 brings 9 to meet his hidden community, leaded by the coward 1. When 2 is captured by a machine, the newcomer 9 convinces the other dolls to go with him to rescue 2. However, 9 places the device that he found in a slot and activates a lethal machine called Brain. The burlap dolls are chased by Brain and despite the advices of 1 that they should hide, 9 organizes an attack to destroy Brain.

When 9 first comes to life, he finds himself in a post-apocalyptic world where all humans are gone, and it is only by chance that he discovers a small community of others like him taking refuge from fearsome machines that roam the earth intent on their extinction. Despite being the neophyte of the group, 9 convinces the others that hiding will do them no good. They must take the offensive if they are to survive, and they must discover why the machines want to destroy them in the first place. As they'll soon come to learn, the very future of civilization may depend on them.