Purpose This study was conducted to assess the capability of the lumped parameter model (LPM), an efficient model due to its analytical nature and the limited data requirements, to estimate health risks from nitrate in groundwater in arid and semi-arid climates. Methods To assess the capability of LPM, two scenarios were established: one for estimation of hazard quotient (HQ) via monitoring nitrate concentration in groundwater and the other using the LPM. After nitrate was monitored in 148 randomlyselected wells, a modified LPM was used to estimate water volume and nitrate concentration, which ultimately led to the development of a model for estimating HQ. The performances of LPM were assessed using the coefficient of determination, percentage standard deviation, and root mean square error. To compare health risk maps Kriging, Spline, Inverse distance weighted, and natural neighbor models were run using geographical information system (GIS). Results Linear analysis revealed a strong correlation between HQ values estimated in LPM and monitoring scenarios in arid climate compared to semi-arid (r = 0.962, n = 22, p = 0.00), suggesting that the LPM was more accurate in predicting nitrate concentration in the arid climate. Uncertainty analysis showed that LPM outputs were sensitive to several parameters, especially leakage from cesspits, which are involved in the sources and sinks of nitrate in the groundwater. In addition, it was found that the natural neighbor was the most appropriate model with the lowest errors for preparing health risk maps from nitrate. Conclusions The obtained results revealed that LPM can be effectively used to estimate nitrate concentration in groundwater in arid climates and thereby LPM is an appropriate model to estimate health risk from nitrate in this climate.