The concentration of silica is required to meet a certain level because silica affects fuel and materials integrity by forming a zeolite layer on fuel cladding surfaces. When the established Feed and Bleed method is employed, nuclear waste increase and the corresponding amount of boric acid is constantly consumed. This study concentrates on minimizing the amount of nuclear waste and consumption of boric acid. Using five different membranes, operating conditions such as temperatur, feed water flow rate, boric acid recovery and silica removal rate were examined. A silica-selective removal system was designed based on the above optimization procedures. Three-stage system was designed with two characteristically different membranes so that it could correspond with the different situation easily. Compared to the pevious results of the Feed and Bleed method, the current method showed that the amount of nuclear waste was reduced to 7%, and the consumption of boric acid to 15.7%.