Adding organic amendments to soils in orchards has been suggested as a climate-smart agricultural practice that can increase resilience to extremes such as drought. The benefits of adding almond hulls and shells to soil include releasing potassium into the soil, improving water infiltration, reducing soil water evaporation, and enhancing water-holding capacity. In this study, soil infiltration and root water uptake (RWU) patterns of almond trees in amended and control soil treatments were investigated. An almond orchard was mulched with a mixture of almond hulls and shells used as surface-applied organic matter amendments. The combined use of time-lapse electrical resistivity tomography (ERT), stem water potential (SWP) and leaf water potential (LWP) measurements were used to evaluate RWU, soil infiltration patterns, and tree water status at different times during the study. The results of the ERT showed that the RWU patterns for the almond trees are distinct between the amended and the control treatments after the irrigation was applied. Compared to the control treatment, the amended treatment allowed the soil to store more water. Regardless of treatment, the majority of RWU patterns were observed in the top 0.5–1 m root zone depth. Almond trees began to recover from stress, as indicated by the SWP and LWP values, four hours after the start of irrigation. In addition, this was demonstrated by the ERT measurements, which revealed the RWU activity four hours after the irrigation had been applied. This research reveals that time-lapse ERT surveys combined with soil and tree water status data can infer patterns of RWU in almond trees grown with organic soil amendments and under controlled conditions. Furthermore, it was concluded that using almond hulls and shells as organic matter amendments can help almond growers improve infiltration, making almond production more resilient to climate change-related extremes such as droughts.