The goal of the ongoing research is to better understand the physical-chemical mechanisms that regulate the physical and chemical characteristics of groundwater resources in the studied region. The water samples were obtained at different depths varied from 120 m to 230 m. The physicochemical properties of fourty groundwater points were obtained through the fractured limestone aquifer, such as Na⁺, K⁺, Ca²⁺, Mg²⁺, Cl^-, SO₄^2-, HCO₃^-, K⁺, and CO₃^2-. The salinity of the groundwater varied from 1000 mg/L to 3300 mg/L, with the central region and the area close to the River Nile having the highest salinity and decreasing in the north, south, and east. The most of water points from the investigated region revealed that the water needed proper drainage and treatment for irrigation purposes.