This study was conducted in order to evaluate the removal process for long-term contamination sources including chlorinated hydrocarbons (TCE and PCE) and explosive compounds (TNT, RDX, and HMX) in underground water using a pulsed-UV system. Crystallized cells containing the contaminants were placed 10, 20, and 40 cm away from a lamp that emits pulsed-UV rays in order to examine how the removal efficiency is influenced by the distance between the source of the light and the compounds. Chlorinated hydrocarbons were completely removed in 30 minutes with a distance of 10 cm, while PCE was completely removed even with a distance of 20 cm. In the case of explosive compounds, removal efficiencies slightly varied depending on the compounds. The majority of the compounds were perfectly removed with a contact time of 10 minutes. In particular, for RDX, the results showed that complete removal was obtained within one minute, regardless of the distance from the UV source. The amount of light energy is in inverse proportion to the distance, and thus the energy reaching the compounds severely diminishes as the distance increases. Therefore, the removal efficiency decreased with increasing distance in the system.