Sequencing Batch Reactor (SBR) was operated under various experimental conditions to improve the efficiency of biological filters used for the treatment of recycled wastewater from aquaculture. This SBR system was operated for removing COD, ammonia and suspended solid that were the major pollutants in aquaculture wastewater. Aerobic and anoxic conditions after FILL mode were applied intermittently for effective removal of nitrogen. SETTLE and DRAW modes were followed by the complete aerobic and anoxic REACT mode. The total volume of the SBR was 75 liter, while the working volume in a cycle was 35 liters. When the final operating strategy of the SBR was FILL/REACT/SETTLE/DRAW of 0.5/10/1/0.5 hr. the removal efficiencies of TCODcr, $NH_{4}^{+}-N,$ and T-N were 94, 98, and $89\%,$ respectively.