A pilot plant sequencing batch reactor (SBR) was applied in a wastewater treatment plant treating urban wastewater focused on carbon and nitrogen removal. From an initial predefined step-feed cycle definition, the evolution of the on-line monitored pH and calculated oxygen uptake rate (OUR) were analysed in terms of knowledge extraction. First, the aerobic phases of the SBR cycle were operated using an On/Off dissolved oxygen (DO) control strategy that concluded with a sinusoidal pH profile that made detecting the "ammonia valley" difficult. After changing to fuzzy logic control of the dissolved oxygen and by adding an air flow meter to the pilot plant, the pH evolution and on-line calculated OUR showed a clearer trend during the aerobic phases. Finally, a proposed algorithm for adjusting the aerobic phases of the SBR for carbon and ammonia removal is presented and discussed.