The purpose of this study was to evaluate the operational characteristics of wastewater treatment using Sequencing Batch Reactor (SBR) with Aerobic Granular Sludge (AGS) separator in the pilot plant. Pilot plant experiments were conducted using SBR with AGS separator and pollution removal efficiencies were evaluated based on the operational condition and surface properties of AGS. The results of the operation on water quality of the effluent showed that the average concentration of total organic carbon, suspended solids, nitrogen, and phosphorus was 6.89 mg/L, 7.33 mg/L, 7.33 mg/L, and 0.2 mg/L, respectively. All these concentrations complied the effluent standard in Korea. The concentration of mixed liquor suspended solid (MLSS) fluctuated, but the AGS/MLSS ratio was constant at 86.5±1.3%. Although the AGS/MLSS ratio was constant, sludge volume index improved. These results suggested that the particle discharged fine sludge and increased the AGS praticle size in the AGS. Optical microscopy revealed the presence of dense AGS at the end of the operation, and particles of > 0.6 mm were found. Compared to those of belt-type AGS separator, the required area and power consumption of the hydrocyclone-type AGS separator were reduced by 27.5% and 83.8%, respectively.