Seagrass, especially Enhalus acoroides, is one of the important components in coastal ecosystems that provide various ecological and economic benefits. Secondary metabolite compounds produced by Enhalus acoroides can vary based on the environmental conditions where they grow. This study aimed to determine the profile of secondary metabolite compounds of Enhalus acoroides extract in the Suli Waters, Central Maluku Regency. This research was conducted experimentally in the laboratory and analyzed descriptively. Water quality was assessed based on temperature, dissolved oxygen levels, salinity, and pH, while identification of secondary metabolite compound groups was carried out qualitatively using phytochemical tests. Water quality showed that the seawater temperature in the waters of Suli Village reached 30°C; dissolved oxygen levels were 6.1mg/ L; salinity was 30^o/_oo; and pH was 6.8. It was observed that the methanol extract of Enhalus acoroides contains flavonoids, saponins, phenolics, tannins, steroids, terpenoids, and alkaloids. Meanwhile, flavonoids, phenolics, tannins, steroids, and terpenoids were detected in the ethyl acetate extract of Enhalus acoroides. Environmental conditions and the use of different types of solvents can affect the composition of the secondary metabolite compounds produced.