Imaging spectroscopy (IS) can identify target materials at both mineralogical and geochemical level. Therefore, in environmental applications it can be used to assess contamination derived from mining activities, moving from contamination sources along pathways to receptors as Acid Mine Drainage (AMD). This can be based on the spectra of specific assemblages of minerals from spectral libraries, which can indicate pH values at the time of their generation and the subsequent acid generating potential. Alternatively, field spectral measurements can be used as input data for mapping algorithms. This study presents a new methodological approach developed to improve the results for mapping contamination sources and pathways, by combining multi-source spectra from both these approaches at different scales. In addition to the mineralogical libraries and field spectra already mentioned, additional endmembers spectra are used that are extracted from IS data, so as to highlight particular site phenomena otherwise undetected by the two previous approaches. The highly correlated spectra are then used as input to the Spectral Angle Mapper algorithm, to establish a map of local field spectra and also one from image endmembers. The intersection of the two maps results in an improved map, assigned in terms of correlation â„0.8 of mineralogical assemblages focused on AMD indicators. This methodology was tested in the abandoned S. Domingos Mine, in SE Portugal`s Iberian Pyrite Belt, with AMD caused by long-term exploitation of Volcanogenic Massive Sulphide deposits. Data from the HyMap TM sensor covered the area and field spectroradiometric measurements were undertaken and analysed for mineralogical and geochemical content. A fligthline containing the open pit was processed according to the aforementioned methodology, focusing directly on the target of interest and minimising errors. The final map displays the mineralogical assemblage correlations â„0.8 of variable pH indicators, particularly isolating a low pH combination of significance to the contamination in the area.