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In this paper, we propose new RAM/ROM module system with reconfigurable memory architecture for three-dimensional (3D) image processing VLSI system. To enable flexible image data processing, suitable input/output data control is critical feature for high performance image processing system. The fast speed 3D VLSI system also requires efficient pipeline data operation. New RAM/ROM synthesis design system is realized by specific arrangement with RAM, ROM, pin and interconnection. The pipeline Flip- Flop control, clock buffer insertion and critical signal route have been improved to enhance whole system operation speed. The network-on-chip system is also proposed to enable fast signal transmission and correct control operation. The 3D image processing VLSI system can also be improved by suitable data storage and pipeline control flow. The chip simulation experiments show the accurate results with 247.728mW power consumption and 50MHz processing frequency. Practical chip test conclusion confirms that new RAM/ROM synthesis design can successfully realize innerchip write/read function and efficient data flow control to improve 3D reconfigurable system efficiency. Better image VLSI system can be realized by elaborate network-on-chip system and precise 3D stacking layer design.