Karst groundwater represents a source of freshwater for a quarter of the world's population. Modeling the hydrological behavior of karst aquifers while accounting for the spatial variability of the recharge processes and the land-use change impacts on water availability remains a challenge for karst water resources management. Therefore, this study proposes a new semi-distributed hydrological model named Integration of Surface ProcEssEs in Karst Hydrology (ISPEEKH) for simulating the surface-underground water flows in karst-dominated catchments. ISPEEKH couples the restructured version of the Soil and Water Assessment Tool (SWAT+) with a non-linear three-reservoir groundwater model that represents the epikarst and matrix-conduit flow components in a karst aquifer. ISPEEKH was applied to the Baget karst catchment (13.25 km2) in the Pyrénées mountains of southwest France, characterized by a conduit-dominated spring flow and low surface runoff. The model simulated the catchment daily discharge satisfactorily, with NSE = 0.67 and R2 = 0.68 for the 2008–2013 calibration period, and NSE = 0.65 and R2 = 0.69 for the 2014–2018 validation period. The catchment evapotranspiration and discharge amounted to 33 % and 67 % of the average annual precipitation, respectively, and nearly 80 % of the discharge was attributed to spring flow. The matrix-to-conduit flow accounted for 4–7 % of the monthly spring flow during the high-flow period (December to June), and up to 22 % during the low-flow period (July to October). ISPEEKH was then used to assess the hydrological response of the Baget catchment to land-use change scenarios of afforestation and deforestation for wood production and pasture development. Afforestation of the full catchment area did not alter the catchment hydrology significantly. Deforestation for wood production reduced annual evapotranspiration by 12–18 % and increased annual recharge by 7–8 %, resulting in annual discharge rising by 6–9 %. These changes in the water balance components were most noticeable during the low-flow season and would augment freshwater availability. Conversely, deforestation for pasture development raised annual evapotranspiration by 13–17 % while reducing annual recharge by around 7 % and discharge by 5–7 %. These changes in the hydrological components were most remarkable during the high-flow season and affected discharge below 2.5 m3.s−1.