Arequipa is a semi-desert city located in southern Peru which depends on the Chili River as its only water source. During recent years, this city has increased its number of inhabitants significantly as a result of internal migratory flows and population growth. Because of this, the city has undergone a rapid urbanization process which has increased the urban areas near the river and caused the destruction of agricultural areas, as well as their native vegetation. This change in land use can be quantified through satellite image analysis across many years, but as noted, there are no studies on its impact on water yield (WY) in the urban section of the river. Now, by using the Integrated Valuation of Ecosystem Services and Compensation (InVEST) model, which allows the WY of the study area to be evaluated in millimeters and cubic meters by introducing a series of variables, such as precipitation, reference evapotranspiration and types of land use classes, among others, it is possible to determine that the WY from the study area was 1,743,414 m3 in 1984 and 1,323,792 m3 in 2022; the urban area is the type of land use with the highest increase with respect to its percentage contribution to the WY, going from 30.43% to 49.62% between 1984 and 2022, respectively. The increase in urban area mitigated the loss of total WY, explained by a higher percentage runoff rate, surface flow and drainage problems in the study area.