From January 2020, the International Maritime Organization (IMO) will implement a stricter limit for sulfur in fuel oil of ships operating in all sea areas based on their regulations. This report presents the practical design of a SOx scrubber that can stay within this limit with a treatment capability for large-output engines of ultra-large container ships. By marinizing the rectangular flue gas desulfurization system for onshore boilers, which Mitsubishi Hitachi Power Systems, Ltd. (MHPS) has improved over the years, we have given the SOx scrubber advantages in terms of the installation layout, especially in large container ships, also enabling it to be installed without reducing the cargo capacity. The system we offer has a high sulfur removal efficiency and is compliant with the regulations of all sea areas including Emission Control Areas (ECAs) which are subject to the particularly strict emission regulations.