Numerous countries face water crises due to population growth, shifting climatic patterns, limited water resources, rapid industrialization, societal changes, and poor resource governance, which pose challenges to the supply of water, food, and energy. This study develops a Water–Food–Energy Nexus (WFE) model using the System Dynamics (SD) approach to capture the complex interactions among domestic, industrial, and agricultural sectors while incorporating environmental protection policies. The proposed model is developed and applied to assess the water crisis in the Zayandeh-Roud River basin, which plays a strategic role in ensuring water, energy, and food security in central Iran. Climate change alters hydroclimatic patterns and directly and indirectly affects the subsystems of the water–food–energy nexus. Precipitation and temperature outputs from three Atmosphere–Ocean General Circulation Models (AOGCMs), obtained from the Intergovernmental Panel on Climate Change Sixth Assessment...