A manufacturing method of a color filter substrate is provided. In the method, a substrate is provided. A first color layer, a second color layer, and a third color layer are then sequentially formed on the substrate. At least any two of the first color layer, the second color layer, and the third color layer are partially overlapped to form a number of supporters. Next, a common electrode layer is formed on the substrate to cover the first color layer, the second color layer, the third color layer, and the supporters. A light-shielding layer is then formed on the common electrode layer, and a portion of the light-shielding layer is disposed over the supporters. Based on the manufacturing method of the color filter substrate, fewer masks are required.