Soil salinity and sodicity are escalating problems worldwide, especially in arid and semiarid regions. A laboratory experiment was conducted using soil column to investigate leaching of soluble cations during reclamation process of a calcareous saline–sodic soil (CaCO3 = 20.7%, electrical conductivity (EC) = 19.8 dS m−1, sodium absorption ratio (SAR) = 32.2[meq L−1]0.5). The amendments consisted of control, cattle manure (50 g kg−1), pistachio residue (50 g kg−1), gypsum (5.2 g kg−1; equivalent of gypsum requirement), manure + gypsum and pistachio residue + gypsum, in three replicates which were mixed thoroughly with the soil, while sulfuric acid as an amendment was added to irrigation water. To reflect natural conditions, after incubation period, an intermittent irrigation method was employed every 30 days. The results showed that EC, SAR, and soluble cations of leachate for the first irrigation step were significantly higher than those of the subsequent leaching runs. Moreover, the concentration of removed soluble cations was lower for the control and gypsum-treated soils. It was found that among applied amendments, treatments containing cattle manure showed higher concentrations of sodium, calcium, and magnesium in the leachate, while due to pistachio residue application, further amount of potassium was removed out of soil column. The addition of pistachio residue resulted in the highest reduction in soil salinity and sodicity since the final EC and exchangeable sodium percentage dropped to 18.0% and 11.6% of their respective initial values, respectively. In the calcareous soil, solubility of gypsum found to be limited, in contrast, when it was added in conjunction with organic amendments, greater amounts of sodium were leached.