Current research on the river ecosystem in Taiwan is a lack of integrated strategy on urban river ecosystem management. This study aims to evaluate the river quality based on eco-security. Our goal is to provide a framework to conceptualize the impacts of various urban river eco-security development. Using the systems thinking, the related eco-security operation mechanisms have been constructed by five subsystems, “drainage control” ,”purification ability”, “water recycled”, “habitat” and “biomass” analyzed. Also, through the new Fuzzy Delphi expert survey, the index system of urban river eco-security (IES) has been compiled in order to explore the variables. It is clear that urban river eco-security model provides an alternative decision model and corresponds to the direction of sustainable city.