Abstract: Accurate, yet cost effective, sites characterization and analysis of uncertainty are the first steps in remediation efforts at sites with subsurface contamination. From the time of source identification to the monitoring and assessment of a remediation design, the management objectives change, resulting in increased costs and the need for additional data acquisition. Parameter estimation is a key component in reliable site characterization, contaminant flow and transport predictions, plume delineation and many other data management goals. We implement a data-driven parameter estimation technique using a counterpropagation Artificial Neural Network (ANN) that is able to incorporate multiple types of data. This method is applied to estimates of geophysical properties measured on a slab of Berea sandstone and delineation of the leachate plume migrating from a landfill in upstate N.Y. The estimates generated by the ANN have been found to be statistically similar to estimates generated using conventional geostatistical kriging methods. The associated parameter uncertainty in site characterization, due to sparsely distributed samples (spatial or temporal) and incomplete site knowledge, is of major concern in resource mining and environmental engineering. We also illustrate the ability of the ANN method to perform conditional simulation using the spatial structure of parameters identified with semi-variogram analysis. This method allows for the generation of simulations that respect the observed measurement data, as well as the data's underlying spatial structure. The method of conditional simulation is used in a 3-dimensional application to estimate the uncertainty of soil lithology.