The area of mangrove forests in Indonesia in 2021, according to the Ministry of Environment and Forestry, is around 3,364,080 Ha; this amount is equivalent to 23% of the world’s mangrove ecosystem, which is from a total of 16,530,000 Ha (FAO, 2005). Information on the condition of mangrove ecosystems is important to know whether or not an area is good. Studies related to the condition of mangrove ecosystems based on environmental quality and mangrove health index to determine the environmental quality and mangrove health are needed for ecosystem management in the future. This article describes the health parameters of mangrove ecosystems that will be analyzed with the help of a combination of decision support software such as fuzzy and ISM so that priority mangrove ecosystem locations can be determined, mangrove health index values to determine the health status of mangrove ecosystems and determine alternative sustainable mangrove ecosystem management policies that will be applied to the object of study. In addition, the study also discusses the concept of determining standard criteria for the level of damage to mangrove ecosystems and determining the status of mangrove ecosystems. Based on fuzzy logic, data analysis shows that the output of the Mangrove Health Index can be determined with 3 variables and 27 rules, with key factors in Mangrove Density, Canopy Cover and Number of saplings. The results of ISM show that management institutions that must be actively involved in supporting the success of sustainable mangrove forest ecosystem management in Batam City are KLHK, DLHK Riau Islands Province, and BPDAS Sei Jang Duriangkang. Proper handling of constraints and management institutions that are actively involved in mangrove forest ecosystem management will ultimately encourage budget effectiveness and efficiency to meet the main goal, namely sustainable mangrove forest ecosystem management in Batam City.