This study aims at the evaluation of physiological and biochemical aspects of resistance against soil salinity stress and periodic variations of cotton peroxidase activity, during different stages of vegetative growth, under diverse salinity of natural soil and plant genotypes has been measured.There for two cotton (Gossypium hirsutum L.) cultivars, Siokra and Sahel have been planted in four level of soil salinity [EC=0.6 (control) EC=6.3, EC=12.3 and EC=16 dsm-1]. Field tests in three stages of vegetative growth consist of two foliair, four foliair and six foliair seedlings were performed.In leaves of both cultivars, from 1st to 3rd stages, with increasing salinity stress, increased Na+, cl- concentrations noticeably.Salinity stress decreased RWC, CGR, LAI in both cultivars. Peroxidase activity, of sahel cultivar in all the three stages of the vegetative growth increased and in the resistant cultivar of siokra it decreased in the first and second stages of field, but it increased in the 3rd stage. Regarding the higher resistance of siokra cultivar, it reaveals that this cultivar in the early stage either did not need antioxidant enzyme or used other enzymes for antioxidant activities. Depending on degree of soil salinity, plant genotype (cultivar) and the stage of vegetative growth (in siokra cultivar), the effect of salinity on the activity of antioxidant enzymes was varied. There was a positive correlation between peroxidase activity and the increase in salinity stress in the sensitive cultivar. The peroxidase activity of sahel cultivar was dependent on its early potential level, but in siokra cultivar it was quite inductive. If peroxidase activity is used as a mechanism, in different plants the vegetative stage of its increase is different, because in the siokra cultivar peroxidase activity began to increase in the third stage (5th and 6th foliairs).