Mustard Seed Systems Corporation started its operations in September 1999. It was set-up as the Authorized Distributor of an off-the-shelf accounting and point-of-sale system for the Philippines. Since then, the company has grown its install base to more than 2,000 companies. The company has since developed to become a world-class software developer, and distributor focusing on the needs of small and medium enterprises.

From its beginnings, Mustard Seed Systems has started to make in-roads in other countries, such as Singapore, Malaysia, Indonesia, Sri Lanka, and Hongkong.