This study employed Taguchi method to identify key factors influencing the protection provided by the surface treatment of reinforced concrete structures. We evaluated the protective characteristics of silicate concrete sealer (SCS) as well as its underlying mechanisms. An L12 (27) orthogonal array was produced using seven control factors and two levels to obtain the necessary data from only twelve experiments. Tests were performed to evaluate compressive strength, water absorption, and permeability. The major factors influencing the effectiveness of SCS included the water-binder ratio of the substrate, cumulative curing time of the sealer, content of pozzolanic material, and type of sealer materials. XRD analysis and SEM observation revealed the composition and efficacy of SCS in protecting concrete. The SCS reacted chemically with the cement hydration product Ca (OH)2 and filled the pore structure with C-S-H gel, which succeeded in greatly improving the mechanical properties of the concrete.