The organization is directed by the Chiefs of the member First Nations who form the Board of Directors.
In 1979, the scope of the company expanded in its range of projects undertaken and services provided to the communities and to reflect this change, the company became the Windigo Project Development Area.
Shortly afterwards, Slate Falls, Cat Lake and Mishkeegogamang First Nations joined the Council.
In December 1994, Koocheching First Nation was recognized as an associate member of the Council — associate members received limited services delivery and participation in the Council.
In 1995, Saugeen withdrew from membership in all political organizations, including Windigo First Nations Council.