Allen's chipmunks prefer dense chaparral and forests with substantial shrub understories. They are also found in conifer, deciduous and brush habitats. It is a ground forager that looks in litter for fungi and the seeds of conifers, shrubs, forbs. Allen's chipmunks require shrubs near stands for quick cover and protection while foraging. May. Females have one litter per year with four to five young per litter.
Nests are in trees and snags.
Predators of Allen's chipmunks are coyotes, weasels, badgers, snakes and large birds of prey.