Large and severe wildfires can dramatically alter terrestrial and aquatic ecosystems. We documented changes in benthic macroinvertebrate communities and physical habitat at two sites along Angora Creek, CA, USA for 2 years following a severe fire. Although post-fire years had low precipitation, canopy cover and bank stability declined dramatically following the wildfire (canopy cover: 88% pre-fire, 22% post-fire; stable bank: 93% pre-fire, 11% post-fire). Substrate also changed substantially, with fine sediment 89 more abundant post-fire and cobble 79 less abundant post-fire. We found no consistent changes in taxonomic richness or diversity following the fire, but post-fire densities and percentage of sensitive taxa were significantly reduced. We observed large reductions in relative abundances of shredder and scraper taxa, while collector-gatherer abundances increased. Community composition shifted away from pre-fire configurations, and continued to diverge in the second year following the fire. Scores from a regionally derived index of biotic integrity (IBI) were variable but overall much lower in post-fire samples and did not show recovery after 2 years. Overall, our study demonstrated substantial post-fire effects to aquatic ecosystems even in the absence of large flooding or scouring events, and showed that these effects can be transmitted downstream into unburned reaches.