The MS FSCC is jointly offered by the member universities of the Southeast Asian University Consortium for Graduate Education in Agriculture and Natural Resources (UC); these are Kasetsart University (KU) in Thailand, Universiti Putra Malaysia (UPM) in Malaysia, the University of the Philippines Los Baños (UPLB) in the Philippines, Institut Pertanian Bogor (IPB) and Universitas Gadjah Mada (UGM), both in Indonesia. Other UC members such as Universitas Brawijaya (UB) in Malang, Indonesia will also host MS FSCC activities while Tokyo University of Agriculture (Tokyo-NODAI) and National Taiwan University (NTU), UC associate members, commit to accept MS FSCC students for the non-degree mobility.

The MS FSCC involves a compulsory mobility of students within the UC. Thus, each MS FSCC student will be enrolled in two universities, be supervised jointly by professors from these universities, and have a joint thesis defense. The students will also attend summer schools that will serve as enhancement courses for the MS FSCC.