In this study, a comprehensive field monitoring was conducted to understand habitat conditions of fish species in up and downstream of Hoengseong Dam. Based on the monitoring data, riverine health conditions such as composition ratio of fish species, bio-diversity (dominance index, diversity, evenness and richness), index of biological integrity (IBI) and qualitative habitat evaluation index (QHEI) were assessed, and optimal ecological flowrates (OEF) were estimated using the habitat suitability indexes (HSI) established for three fish species Coreoleuciscus splendidus, Pungtungia herzi and Microphysogobio longidorsalis selected as icon species using the physical habitat simulation system (PHABSIM). The total number of species sampled was 20 species, and two species of Zacco platypus (30.4%) and C. splendidus (20.9%) dominated the fish community. As a result, it was revealed that IBI and QHEI values decreased from upstream to downstream along the river. The estimated IBI value ranged from 24 to 36 with average being 30.9 out of 50, rendering the site ecologically fair to good health conditions. HSI for C. splendidus were determined according to three different month in terms of season: Spring (April), Summer (August) and Autumn (October). HSI for flow velocity were estimated at 0.7 to 0.8 m/s for the Spring, 0.5 to 1.0 m/s for the Summer and 0.8 to 0.9 m/s for the Autumn. HSI for water depth were estimated at 0.3 to 0.5 m for the Spring; 0.3 to 0.5 m for the Summer; and 0.3 to 0.4 m for the Autumn. OEF was estimated at 4.2 and 6.5 m3/s for the Spring and Autumn, and 12.0 m3/s for the Summer. Overall, it was concluded that the Hoengseong Dam has been relatively well protected from the anthropogenic disturbance for the legally protected species including the endemic species studied in this study.