To create miniaturized components, a 3-axis micro-milling machine tool composed of linear motor stages, high-speed air-bearing spindle and motion control card DMC-1842 is developed in this paper. The CNC system of the parallel double CPU based on industrial control computer and Windows operating system is constructed. The application software of CNC system is exploited by modularized mind in C# programming language, reasonable human-computer interface is designed. Finally, in order to validate the performance of the micro-milling machine, the miniaturized parts are machined o by developed CNC system. Through these tests analysis, the hardware and software architecture of the CNC system is verified to meet the requirements of the micro-milling machine tool. Micro-milling process with developed micro-milling machine tool is proved to be feasible and applicable, and can fully satisfy the producing requires of miniaturized components.