Fifteen days old seedlings of waterlogging tolerant (Parkash) and sensitive (Paras) maize genotypes were subjected to short-term waterlogging (18 h) under field conditions. Activities of various antioxidative and anaerobic metabolism enzymes were investigated in leaf and root tissues. Superoxide dismutase (SOD) activity increased in leaf tissue while glutathione reductase (GR) activity was enhanced in leaf as well as root in both the genotypes. However, tolerant genotype had better induction capability of SOD and GR in roots in comparison with sensitive genotype. Catalase activity increased in roots of both genotypes. Waterlogging caused strong induction in alcohol dehydrogenase activity in the roots of Paras and Parkash under stress conditions. Aldehyde dehydrogenase activity was significantly increased only in roots of Parkash in response to waterlogging. In comparison with sensitive genotype, the tolerant genotype had low H2O2 and malondialdehyde content in roots under stress conditions. The present studies suggested that tolerant genotype had a greater protective ability due to higher induced activities of antioxidant and ethanolic fermentation systems than Paras.