Health assessment of aquatic ecosystem was investigated by using LEHA (Lentic Ecosystem Health Assessment) model method with habitat fish population structure analysis in this study. The investigation was two comparison spots (St 1; floating island, St 2; 500 m away site from st 1) in the Habcheon lake of Korea. As results, health evaluation of Habcheon lake ecosystem was fair grade of LEHA scores base on metric values in both place (30 score in st. 1 and 32 score in st. 2).