The architecture of nature-inspired computation systems is inquired into, the characteristics of fuzzy design in nature-inspired computation systems are researched, and a particular scheme on fuzzy design in nature-inspired computation systems is designed with environment being these data gathered from the present; study unit adopting fuzzy optimization algorithm based on genetic algorithm; knowledge base adopting design criteria; executive part being design unit. The fuzzy optimization learning algorithm of regression equation is built, and the flow chart of the algorithm is constructed. At last, the design criteria of flash size are obtained, and the stability of the algorithm is verified through this example. The result shows that fuzzy design makes nature-inspired computation systems be able to gain knowledge automatically with their quality improved and their intelligent level advanced, and fuzzy design will greatly influence the memory mode, information input mode and system structures of nature-inspired computation systems.