Recent developments in digital technologies are heralding significant changes in the way we acquire, visualise and analyse archaeological data. Terrestrial laser scanners can be used to create photo-realistic virtual copies of landscapes, and archaeological features, and offer the potential to improve our understanding of three-dimensional (3D) spatial relationships at study sites. Here we present a methodology for the integration of a high-resolution 3D site model with soil chemical data obtained from an abandoned settlement site located in the Central Highlands of Scotland. At this site, the multi-element concentration in soil, co-visualised within a topographic setting, has an important role to play in elucidating settlement layout and activity. The methods described here are also of significance in archiving sites of archaeological/historical importance where development activities and/or environmental processes may destroy remains, or where access to field sites is restricted.