This study applies a benchmarking approach to evaluate and compare the Performance Efficinencies PE of Jui-Naw main canal irrigation system, situated in the lower Hari-Rod river basin of Afghanistan. In this study, a set of performance indicators are used to evaluate and compare irrigation systems within the system comprising of head (U/S), middle (Mid/S) and tail (D/S). Secondly, a data envelopment analysis (DEA) is applied to measure the efficiency of farmers in wheat farms at different sections of the main canal. Evaluation of irrigation performance indicators was carried out using three groups of performance indicators namely, Service Delivery Performance (SDP), Financial Performance (FP) and Productivity Efficiency Performance (PEP). These performance indicators are also used to compare the performance of four other irrigation systems. The comparative performance indicators developed by IWMI were adopted in order to evaluate the efficiency of the irrigation systems. The overall result of this study can be used to support the decision making and guidelines for the planners, governments, and donor agencies.