The influence of humic substances on the electrochemical treatment of solutions resulting from the remediation of atrazine contaminated soil has been investigated. In particular the effect on the hydrogen peroxide production stage and the effect on the hydroxyl radical oxidation treatment have been separately studied. In order to quickly assess the possible inhibition of the removal, an inorganic system has been adopted as a standard system. The results confirm the validity of electrochemical technologies also for the treatment of a real effluent where a matrix effect is expected since the organic matter content affects only the hydrogen peroxide production.