The Nan-Shi-Keng mountainous stream located in Shidin township, Taipei county is selected to study the influence of remediation work on the stream in this study. The data, including the Digital Terrain Mode (l DTM), flow depth, flow velocity, substrate and fish distribution, etc., in the mountainous stream were collected. Two-dimensional model FLO-2D is applied to evaluate the flow depth and flow velocity at various discharges. Three fish habitat suitable curves, including the flow velocity, flow depth and substrate, in the study area are used. Then the Habitat Suitability Index HSI and Weighted Usable Area WUA can be determined by geometric method based on the fish habitat suitable curves. The results show a decrease of habitat suitability for the stream after remediation than that before remediation in the channelized section. The value of WUA is decreased by 30%~40% after the stream remediation.