Coastal aquaculture has made an important contribution to global food security and the economic development of coastal zones in recent decades. However, it has also damaged these coastal zones’ ecosystems. Moreover, coastal aquaculture is poised to play a key role in the achievement of Sustainable Development Goals (SDGs). Consequently, extracting aquaculture has become crucial and valuable. However, due to the limitations of remote sensing image spatial resolution and traditional extraction methods, most research studies focus on aquaculture areas containing dikes rather than individually separable aquaculture ponds (ISAPs). This is not an accurate estimation of these aquaculture areas’ true size. In our study, we propose a rapid and effective object-based method of extracting ISAPs. We chose multi-scale segmentation to generate semantically meaningful image objects for various types of land cover, and then built a decision tree classifier according to the unique features of ISAPs. The results show that our method can remove small rivers and other easily confused features, which has thus far been difficult to accomplish with conventional methods. We obtained an overall precision value of 85.61% with a recall of 84.04%; compared to the support vector machine’s (SVM) overall precision value of 78.85% and recall rate of 61.21%, our method demonstrates greater accuracy and efficiency. We used this method to test the transferability of the algorithm to nearby areas, and the obtained accuracy exceeded 80%. The method proposed in this study could provide a readily available solution for the simple and efficient extracting of ISAPs and shows high spatiotemporal transferability.