Water resources are naturally influenced by weather, topography, geology and environment. These factors cause difficulties in evaluating future water resources under changing climate. The Intergovernmental Panel on Climate Change (IPCC) reported that the increasing greenhouse gases which can cause sea level rise increase frequency of storms, heavy rainfall events and droughts. In order to quantify the future change of the hydrological cycle rainfall, different modeling approaches like the use of global climate models, regional climate models and hydrological models (for local scale about 200 km 2) are being used. This paper aims to investigate the challenges in modeling because of different parameter or variable or model conceptualization uncertainties using different scenarios, downscaling methods and climatic variables. This work helps to quantify future water resources to maintain quality of water to support aquatic life, agriculture and industrial needs. Challenges in climate change impact analysis in the present research and knowledge gaps are also discussed.