In this study Edali F1 and Balhan Fl melons (Cucumis melo L.) grafted onto different rootstocks (TZ 148 and Jumbo) under water stress conditions (W1-100%, W2-50%, W3-25%). FRAP (Ferric reducing antioxidant power) values increased with the use of TZ 148 and Jumbo rootstocks. At water stress, grafting generally increased ascorbic acid values. Maximum beta-carotene amount was stated for Balhan Fl with W3 level and the beta-carotene values of Balhan/TZ148 melons increased with water stress. p-hydroxybenzoic acid was the compound with the highest quantity among the tested phenolic compounds. Citric, maleic, fumaric and formic acid quantities increased with enhancement of water deficiency whereas tartaric, succinic and acetic acid decreased. Fructose and saccharose quantity decreased as the amount of water given to plant decreased but glucose level was not affected. Consequently, grafting of melons onto favorable rootstocks seems to enhance the amount of health related compounds under water stress conditions.