This research focuses on improving the performance of GIS projects in the Water Resources Agency (WRA). By collecting and editing the relevant data of GIS projects, this research allows related undertakers to refer before constructing their GIS projects. According to the analysis of questionnaire obtained from WRA, the input variable is the total investment and the output variables are surfing amount, the number of functions, and the number of used graphic layers. In addition, this research utilizes DEA approach to evaluate the performance of GIS projects. The analysis result is feasible and therefore provides the reference for future integration of GIS projects.