By using the sensitive (‘472113’) and resistant (‘0417’) inbreed lines to bitter gourd fusarium wilt as materials, the physiological and biochemical changes of Momordica charantia seedling were studied after inoculation with pathogen. The results indicated that activities of polyphenoloxidase （PPO）, phenylalanine ammonialyase（PAL）, catalase (CAT), chitinase (CHT), β-1, 3-glucanase (GUN), peroxidase (POD) and superoxide dismutase (SOD) had a positive correlation with disease resistance. However, malonaldehyde (MDA) content had a negative correlation with disease resistance. In conclusion, the peak value of PPO, PAL, CAT, CHT, GUN, POD, SOD activities and MDA content could be taken as the indicator for bitter gourd fusarium wilt resistance, and PPO activity was the best followed by CHI, GUN activity and MDA content, due to their much closer correlation with bitter gourd Fusarium wilt resistance.