Recently, the investment and importance have been increasing concerning the researches which are based on fundamental studies. In defense science and technology development, the defense research centers are involved in a large portion of developing the potential capability such as defense applied technology, enhanced human resource, etc. In this paper, we analyzed the relative efficiency of 9 research centers(9 DMU : Decision Making Unit) supported by the defense budget, using DEA(Date Envelopment Analysis) method especially with the CCR-I(Charnes, Cooper, Rhodes-Input) model. Some variables are selected such as budget(input data), patent, article and human resource(output data) to be analyzed. Conclusively, the needs to identify performance-indicators, increase incentives to promote the performance and induce enthusiastic participation in defense science and development projects, are suggested via a relative efficiency analysis.