Context Habitat loss and degradation has contributed significantly to the decline of many species worldwide. To address this loss, we first require a comprehensive understanding of habitat requirements and resource-use patterns of the species under threat. Aims The study aimed to quantify variation in the habitat of a species threatened by habitat loss and degradation, the brush-tailed phascogale (Phascogale tapoatafa tapoatafa), by measuring several physical characteristics of trees and ground cover, as well as to determine potential foraging resource preferences using abundance data from a long-term monitoring study. Methods Phascogale monitoring surveys were conducted over a 13-year period from 2000 to 2012. Habitat variables characterising tree communities, ground cover and coarse woody debris were used to develop explanatory models of phascogale abundance at the site scale. Tree species preference by foraging phascogales was evaluated by comparing usage (trees on which they were captured) and availability. Key results The highest overall animal abundance was at sites characterised by associations of red stringybark, red box, grey box and broad-leaved and narrow-leaved peppermints. At these sites, red stringybark and grey box trees were of small diameter and tended to have small hollows. These sites also had low average tree height, low grass and/or herb and shrub cover and low volumes of coarse woody debris. From a resource-use perspective, phascogales foraged preferentially on certain species of Eucalyptus. Conclusions Our study suggests that phascogale abundance is highly spatially and temporally variable, most likely as a response to heterogeneity in habitat and foraging resources operating at a range of spatial scales. Implications This study has provided new information concerning spatial patterns of phascogale abundance and resource use within a forested area in central Victoria that has been subjected to multiple disturbances. Currently, the composition and age structure of tree communities and ground habitats are a response to severe disturbance due to past mining and harvesting activities. Successful conservation of this threatened species could be enhanced through active management of this forest to maintain the ongoing supply of nesting hollows and foraging resources.