A non-human primate restraint system comprising a complex of a manipulating chamber and a restraint chamber. The system provides a humane, interactive, and safe structure and methods for leading non-human primates from a chute or a cage, through the manipulating chamber, and into a restraint chamber. The restraint chamber is removably attached to the manipulating chamber. The restraint chamber has an upper part with a screen, a middle portion with slots to accommodate platforms, and a lower section with a screen. The screens can be retracted or removed to access either the top portion or lower portion of the NHP.