Most mammals rely on vocal communication to increase survival and reproductive success. While the functions of audible vocalizations have been well‐studied across mammal species, ultrasonic vocalizations in small mammals outside of bats are less understood. North American flying squirrel species (Glaucomys spp.), including the newly described Humboldt's flying squirrel (Glaucomys oregonensis), produce numerous call‐types that extend into the ultrasonic range. To investigate the potential function of ultrasonic call‐types in the Humboldt's flying squirrels, we used ultrasonic recorders to record squirrels in the wild across multiple seasons to determine if there are temporal and seasonal patterns in nightly vocal activity and rates of different call‐types. We recorded Humboldt's flying squirrels in two geographic locations ‐ Humboldt and San Bernardino counties—in California from 2018 to 2022 in the summer and winter across multiple study areas. We found that although seasonal weather conditions differ between locations, flying squirrels in Humboldt and San Bernardino had similar vocal activity patterns across nightly active periods between locations and between summer and winter. Nightly activity patterns of when the three main chirp‐like call‐types (arc chirps, tonal chirps, upsweeps) were given varied between seasons in both geographic locations, and these call‐types were given at greater rates in the summer in San Bernardino, but rates did not vary by season in Humboldt. Trills, the most structurally complex of the four main call‐types, were produced more in the summer than in winter, and also differed in their nightly activity patterns, in both geographic locations. Flying squirrels may use certain call‐types earlier or later in the nightly active period due to their potentially varying functions, and may produce more trills in the summer coinciding with the breeding season. Further understanding of the function of different call‐types can provide insight into social, foraging, and antipredator behavior of this nocturnal and elusive species.