The impact of climate change on river systems is a multifaceted threat to the environment, affecting various aspects of ecosystems. The Upper Benue River Basin (UBRB) in Nigeria is an area of concern, as river flow and water levels are crucial for irrigation and transportation. In this study, we investigate the impact of climate change on the hydrology of the UBRB using data on rainfall, temperature, relative humidity, wind speed, river discharge, and water level. Trend, correlation, and stepwise regression analyses were conducted using Excel and SPSS 20 to analyze the data. The results indicate that the UBRB is experiencing climate change, as evidenced by annual decreases in rainfall and relative humidity and increases in maximum and minimum temperatures. Specifically, mean annual rainfall and relative humidity exhibit a negative trend, while the maximum and minimum temperature exhibit a positive trend. Furthermore, we found that rainfall and relative humidity have a significant positive relationship with river discharge and level (p < 0.01), whereas maximum temperature and wind speed have a significant negative relationship with water discharge and level. We also identified wind speed and rainfall as the critical climatic indices influencing river discharge, accounting for 21.7% of the variation in river discharge within the basin (R2 = 21.7). Based on these findings, we conclude that increases in rainfall and relative humidity will lead to significant increases in river discharge and level, while increases in wind speed and maximum temperature will decrease river discharge and level. Moreover, wind speed and rainfall are the critical climatic indices influencing river discharge, whereas relative humidity, wind speed, and rainfall are the critical climatic indices influencing water level. Thus, we recommend constructing more reservoirs (dams) to mitigate the negative trend in rainfall and encourage climate change control, such as afforestation among the population of the region. These findings have important implications for understanding the impact of climate change on river systems and developing effective strategies to mitigate its effects.