The dataset contains the modeled potential niche of the American Three-Toed Woodpecker and the realized niche of the Flammulated Owl across the Northern Rockies Ecoregion of Idaho. Previously published niche models were transferred to the study region and informed with the outputs of the forest landscape model LANDIS-II. The spatial grain of the data is 200 meters and the Flammulated Owl model is the base model or the niche model’s original input sources. The parameterizations of the LANDIS-II model are provided with the dataset.