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Although the Assistant Secretary of Education then became the highest federal education position, the office of Commissioner of Education continued to exist in the United States Department of Health, Education and Welfare until 1980, when the post was phased out due to the creation of the Cabinet-level Department of Education.
He also served on the National Commission for Accreditation of Teacher Education and Welfare, on North Central Association of Colleges and Schools, as a field reader for music projects, on the United States Department of Health, Education, and Welfare, and as a member of the Academic Panel for cultural exchange projects for the United States Department of State.
In 1969 he resigned to become Under Secretary at the United States Department of Health, Education, and Welfare under Secretary of HEW Robert Finch.
The program was created administratively by the then-Office of Education in the Department of Health, Education, and Welfare as an effort to make use of the best of the Elementary and Secondary Education Act Title III education innovations.
Moffett served as Director of the Office of Students and Youth in the Office of Education within the Department of Health, Education, and Welfare from 1969 to 1970, but quit to protest the Vietnam War.