A buffering protective handheld controller, mainly with a buffering protective configuration for direction button and a number of functional buttons on one side of the main unit. The user is allowed to have greater touch area and more comfortability when pressing the button. In addition, under a long period of button-pressing time, the user has finger contact with surrounding buffering devices to reduce pressure. It composes a multiple-layer cushion as a protective mechanism. Further, the handheld main unit has the rigid plastic base in an appropriate hollow shape, which may be enclosed by a sticking soft pad with a proper size. Thus, it can provide a cushion air-bag effect and fits the user's palm in any shape and any size. Particularly, because the user can hold the unit with a firm grasp by fingers, the grasping force is minimized during use.