The inventions separate the activated sludge, biochemical reaction stages of the batch treatment process of a sequencing batch reactor from the clarification and sedimentation stages by separating the locations where each process takes place. The separation may be accomplished in a variety of ways including constructing separate basins for each process, installing baffles or other partitions in a single vessel to isolate the areas where each process takes place, or other methods of process separation as are known in the art. In each process, treatment occurs through the performance of a series of operations. The operations are repeated for each batch of wastewater processed by the SBR. In a conventional SBR process, the cycle of operations for clarification and sedimentation are dependent on a preceding biochemical reaction step. However, in the present invention the clarification and sedimentation operations are independent of the biochemical reaction operations. It remains possible to coordinate operations so that the process cycles are coincident, however the benefits of the invention are more readily realized by the practice of independent operation.