03LabGrunt,
GIS applications are not-discipline specific. GIS software may be used in the context of an investigation, but is not necessarily limited to the geotechnical side of the project.
Software that I have used to assist with previous investigations include gINT, Global Mapper (unregistered version), and Trimble's GPS Pathfinder Office. These applications do not play with each other seamlessly, so data from one application was exported and massaged to a suitable import format for the next as needed.
Other handy software includes OmniFormat and MS Paint (for converting PDF images to a raster format) and A9CAD and Bentley Redline (for converting CAD files to DXF format).
gINT, Pathfinder Office and Bentley Redline are licensed commercial products. The remainder are available to be used under Windows or other "unregistered" (but crippled) licenses.
Obviously, this was very kludgy, but it did permit me to gain insights into the spatial relationships between the conditions encountered at the borings and other information such as USGS topo, air photos, planned construction etc.
Jeff