Abstract:With High-Tech Strategy and other innovative policies, Germany has formed a national innovation system by the federal government, academic associations, higher education institutions, industry organizations and intermediaries. The Scientific Committee has developed a overall framework for evaluation of research institutions, and the four research agencies also perform institutional evaluation within their duties. Additionally, several rigorous reports are released to evaluate the national innovation system, both at home and abroad. This encourages new innovative policy making. Based on the practice of Germany, this paper concludes that methods should be set up based on the evaluation object to raise the internationalism and comprehensiveness. Both cost and quality of evaluation should be taken into account, and the standardization and informatization system should also be promoted. Last but not least, the department of evaluation should be part of the national innovation system, together with other agencies to make evaluation itself to become a routine.