In the summer 2008, Enteromorpha Prolifra broke out in Yellow Sea and East Sea on a large scale for the first time, and became a marine disaster. The authors constructed a stereoscopic monitoring system which monitored the disaster continuously, dynamically and in real time. The present paper introduced the construction of the stereoscopic monitoring system; through analyzing the spectral characteristics of Enteromorpha Prolifra and ocean water which were acquired in a field experiment, confirmed Enteromorpha Prolifra retrieval models based on multi-platform multi-sensor and multi-spectral remote sensing data, contrasted the different scale monitoring results, and analyzed the evolvement rules with time-series analysis. This system was applied to the Enteromorpha Prolifra emergency monitoring in the 29th Olympic sailing area. It was proved feasible and valuable for the Olympic safeguard.