The government expands its investment on R&D programs for economic growth, thus there is growing attention on the result of R&D Programs. This study proposes more improved measuring method for efficiency when the number of R&D programs is not enough to be for measuring efficiency analysis. It provides more various application method of factors on efficiency analysis. This study analyzes the influence of each input factor on efficiency by using partial efficiency concept. And it also determines input factors in similar influence throughout Spearman correlation coefficient. Finally, it suggests new method to improve discriminatory power of efficiency analysis by determining representative factors. Also, the proposed method can be practiced not only for national R&D programs, but also for other fields of research.