Assessing downstream aquatic habitat availability relative to headwater reservoir management in the Henrys Fork Snake River

Reservoirs are sometimes managed to meet agricultural and other water demands, while also maintaining streamflow for aquatic species and ecosystems. In the Henrys Fork Snake River, Idaho (USA), irrigation-season management of a headwater reservoir is informed by a flow target in a management reach ~95 km downstream. The target is in place to meet irrigation demand and maintain aquatic habitat within the 11.4 km management reach and has undergone four flow target assignments from 1978 to 2021. Recent changes to irrigation-season management to maximize reservoir carryover warranted investigation into the flow target assignment. Thus, we created a streamflow-habitat model using hydraulic measurements, habitat unit mapping, and published habitat suitability criteria for Brown Trout (Salmo trutta), Rainbow Trout (Oncorhynchus mykiss), and Mountain Whitefish (Prosopium williamsoni). We used model output to compare habitat availability across two management regimes (1978–2017 and 2018–2021). We found that efforts to minimize reservoir releases in 2018–2021 did not reduce mean irrigation-season fish habitat relative to natural flow, but did reduce overall fish habitat variability during the irrigation season compared to streamflow management in 1978–2017. Field observations for this research led to an adjusted flow target in 2020 that moved the target location downstream of intervening irrigation diversions. Using our model output, we demonstrated that moving the location of the target to account for local irrigation diversions will contribute to more consistently suitable fish habitat in the reach. Our study demonstrates the importance of site selection for establishing environmental flow targets.