: This study employed the HYDRUS-2D model to simulate soil water movement and water productivity (WP) in an apple–soybean alley cropping system in the Loess Plateau region, Shanxi Province, China, under four irrigation methods: mulched drip irrigation, subsurface drip irrigation, bubbler irrigation, and rainwater-harvesting ditch irrigation, with varying water management treatments. Field experiments provided 2022 data for model calibration and 2023 data for validation using soil water content (SWC) measurements, achieving R2 = 0.80–0.87 and RMSE = 0.011–0.017 cm3·cm⁻3, confirming robust simulation accuracy. The simulation results indicated that different irrigation methods had a significant impact on the soil water distribution. Mulched drip irrigation enhanced the water content in the surface layer (0–20 cm), while subsurface drip irrigation increased the moisture in the middle soil layer (20–40 cm). Bubbler irrigation was most effective in replenishing both the surface (0–20 cm) and middle (20–40 cm) layers. Rainwater-harvesting ditch irrigation significantly improved the soil water content in both the surface (0–20 cm) and middle (20–40 cm) layers, with minimal changes observed in the deep layer (40–120 cm). Furthermore, soil water variations were significantly influenced by the water uptake of tree roots. In 2022, soil moisture initially increased with distance, then decreased, and subsequently increased again, while in 2023, it increased initially and then stabilized. When the irrigation amount was limited to 75% of the field capacity in the 0–60 cm soil layer, water productivity (WP) reached its optimum, with values of 4.79 kg/m3 (2022) and 5.56 kg/m3 (2023). Based on the simulation results, it is recommended that young apple trees be irrigated using subsurface drip irrigation with a soil layer depth of 30 cm, while soybeans should be irrigated with mulched drip irrigation. Both crops should be irrigated at the podding and filling stages of soybeans, and the irrigation amount should be limited to 75% of the field water capacity in the 0–60 cm soil layer. This study was designed to aid orchard growers in precision irrigation and water optimization.
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