The requirement for replacement of soybean meal (SBM) as commonly vegetable protein in fish feed with local potentially vegetable protein as an important for looking the low price of feed ingredient in to create the sustainability aquaculture. The objective of this study was to determine the effect of replacement of SBM with kapok seed oil waste meal (KSWOM) in the diet on the performance and histology in milkfish (Chanos chanos). Four experimental diets were formulated to contain KSOWM as substitution of SBM in the diet, with inclusion level of 0%, 25%, 50% and 75%. Total 120 juveniles (initial weight: 1.14± 0.09 g) were placed into twelve glass tanks (10 juveniles/tank) and the juvenile were reared with using water recirculating system. The feeding frequency of the milk fish was twice a day (8:00 a.m. and 4:00 p.m.) with doses of 5% body weight for 60 days of rearing. The histology of intestine were also assessed. The results indicated that weight gain of the milk fish was significantly different with replacing of 25%, 50% and 75% dietary SBM with KSWOM in the diet. Moreover this feeding trial, survival rate, feed efficiency, and feed conversion ratio of the fish fed the KSOWM diet were significantly different lower than the milkfish fed without replacement of SMB dietary in the diet. Histological analysis showed that of intestine of the fish fed with even though diet contained 25% KSOWM showed also indicated damage in their intestine morphological figure. The present study revealed that replacement less than 25% SBM with KSOWM in the diet might be growth perform well and decrease of histo-morphological damage of the intestine of milkfish.