Non-growing season irrigation and farmland subsurface drainage play a crucial role in salt leaching and salinization control in arid irrigation areas. This study aimed to investigate the reduction of autumn irrigation quotas and drainage discharge while maintaining soil moisture retention and reducing soil salinization. Field experiments were conducted with different autumn irrigation quotas (160 mm for SD1, 180 mm for SD2, and 200 mm for SD3) combined with subsurface drainage (1.5 m drain depth and 45 m spacing). A control treatment (referred to as CK) without subsurface drainage received 200 mm of irrigation. The results showed that, after 31 days of autumn irrigation, the groundwater depth in all three subsurface drainage plots stabilized to 1.5 m, with the CK being 0.2–0.3 m shallower compared to the SD plots. The mean soil water content in the 0–150 cm soil layer of the SD1, SD2, SD3, and CK after autumn irrigation was 0.36, 0.39, 0.41, and 0.42 cm3cm−3, respectively. The combination of autumn irrigation and subsurface drainage significantly reduced the soil salt content. The mean desalination rates in the root zone (0–60 cm) soil layer were 57.5%, 53.7%, 51.9%, and 45.1% for the SD3, SD2, CK, and SD1, respectively. The mean desalination rate of 60–150 cm was not significantly different between the SD2 and SD3 (p > 0.05), and both were significantly higher than that of the SD1 and CK (p < 0.05). The drainage discharge was 31, 36, and 40 mm in the SD1, SD2 and SD3, respectively. The amount of salt discharge through the drain pipe increased with increasing irrigation quota, which was 1.22 t/ha, 1.41 t/ha, and 1.50 t/ha for the SD1, SD2, and SD3, respectively. Subsurface drainage is an effective way to prevent salt accumulation in the soil, and an autumn irrigation quota of 180 mm is recommended for leaching of salinity in the Hetao Irrigation District. These findings provide valuable insights into optimizing irrigation practices and managing soil salinization in arid regions.