Recent advances have broadened the application of palaeoradiology for non-destructive investigation of ancient remains. X-ray microtomography (microCT) in particular is increasingly used as an alternative to histological bone sections for interpreting pathological alterations, trauma, microstructure, and more recently bioerosion with direct or ancillary use of histological indices. However, no systematic attempt has been made to confirm the reliability of microCT for histotaphonomic analysis of archaeological bone. The objectives of this study are therefore to (1) compare thin sections of human femora rated with the Oxford Histological Index to microCT sections using a newly developed Virtual Histological Index, and (2) provide an accessible methodology for the evaluation and visualization of bioerosion in archaeological bone using virtual anthropology techniques. We provide detailed descriptions of virtual sections and volume renderings, and also assess the efficacy of the method on cranial and postcranial elements, cremated long bones, and faunal samples. Furthermore, the need for time-consuming image segmentation is reduced by applying two noise-reducing, edge-preserving filters, and rendering with a colormap chosen to visualize bioerosion along with canal structure and density in 3D. The histological and virtual methods showed a strong correlation, providing the first systematic data substantiating lab-based microCT as a suitable alternative tool for reconstructing post-mortem history in the archaeological record, and for the reliable, non-destructive screening of samples for further analyses.