Separators play an important role in lithium-ion battery operation; however, no comprehensive studies of their microstructure and its impact exist. To enable such studies, we present a simple method for separator microstructure visualization and quantification based on focused-ion-beam scanning electron microscopic tomography. Here, we use this approach to visualize a sample of commercial polyethylene separator, calculate its directional effective transport parameters, and explain the impact of these values on battery performance. We further extend this technique to visualize metallic deposition within the separator, which could facilitate the study of lithium plating and dendritic growth. (C) The Author(s) 2016. Published by ECS. All rights reserved.