The Student Union of the University of Vaasa organizational model relies on traditional representative democracy, where members choose their own representatives in the highest decision-making body elections, in which all those who are eligible can enter as a candidates for election into the Representative Council. The Representative Council, in turn, elects the executive body, the student union Executive Board, to represent themselves and to make decisions.

VYY operates within the framework of the Finnish legislation and its own rules. In addition to these, the Student Union operations are driven, inter alia, by the Action Plan approved by the Board of Representatives.

The Secretary General is the only member of the Secretariat selected by the Representative Council. The Secretary-General acts as the supervisor of the student union workers.