Antifouling substances play a crucial role in inhibiting fouling and adhesion due to their broad-spectrum and non-toxic advantages. Nevertheless, the excessive release of the antifouling agents shortens the service life of the antifouling coating. In this study, we investigated the antifouling performance of an ethanol extract from the root of Stellera chamaejasme (Sc) through algal adhesion experiments. The interaction between Sc and algae (Chlorella and Dunaliella tertiolecta) was further studied by using a UV spectrophotometer. Then, Sc was encapsulated with polydopamine (PDA) microcapsules to prepare Sc@SiO2@PDA microcapsules by the template method. The release behavior of Sc@SiO2@PDA under different pH conditions was investigated. The result demonstrates that the interaction between Sc and algae belongs to single static quenching, and the Sc@SiO2@PDA microcapsules exhibit good antifouling performance against Chlorella and Dunaliella tertiolecta. This work will provide guiding significance for the development of eco-friendly marine antifouling coatings.