Managed aquifer recharge (MAR) structure is widely used to expand groundwater resources. In arid regions with flash flooding, MAR can also be used as a flood control structure to decrease peak discharge of rivers. In this paper, we present a method for quantifying the role of MAR in head water systems and assess its impact on the total water balance in a river basin. The method is based on rainfall-runoff modeling, reservoir flood routing, recharge analysis and river flow analysis. For the case selected, Kamal Abad MAR in Lake Maharlou basin in southern Iran, we analyzed changes in the downstream river regime using two scenarios (with MAR and without MAR) with different return periods. The results revealed a significant impact of MAR on river flow in terms of changes in flow timing, magnitude and variability. With MAR, the ephemeral river studied became disconnected from the main stream, albeit, whereas the case without MAR, floods with return period higher than 10 years would be connected to the downstream. Even though, MAR structures are useful in arid and semi-arid climates for irrigation water supply, their placing and designing need more attention. The developed method can be used to assess the impacts of MAR on river flow and find the best location for it to make the connection of the ephemeral river and downstream river, an issue which has not received much attention in hydrological research.

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