Healthy Bay Area，as part of the national strategic plan，echoes with the strategic plan of building Guangdong-Hong Kong-Macao Greater Bay Area and Healthy China. The construction of Healthy Bay Area faces multiple challenges，including rigid institutional constraints，soft conceptual conflicts，and multilevel equalization among cities hindering cooperation. In order to realize the goal of a healthy Bay Area，it is necessary not only to solve the problem of synergistic health governance similar to other regions in China，but also to actively interact and synergize among the government，the market，and the society under the framework of the “one country，two systems” policy and the Basic Law，to give full play to the socio-economic strengths of the Guangdong-Hong Kong-Macao Bay Area，to innovate the system and mechanism，and to facilitate the flow of factors and talent. In the process of health governance，a modern hospital management system should be established，and a medical and healthcare service system with reasonable layout，appropriate scale，optimized hierarchy，clear responsibilities and perfect functions should be constructed；a hierarchical diagnosis and treatment mechanism with primary care，two-way referral，emergency and slow diagnosis，and up-down linkage should be comprehensively implemented，and at the same time，a health information platform should be set up to share the healthcare resources in the Greater Bay Area.