The Minnesota school of the arts and resource center was established by 1985 Minn. Sp. Sess. 1 Laws Chap. 12 Sec. 6. The board of the Minnesota school of the arts and resource center consisted of 15 persons and was known as the Arts Education Center Board. The board had the powers necessary for the care, management, and control of the Minnesota school of the arts and resource center. The resource center was charged with offering programs "directed at improving arts education in elementary and secondary schools throughout the state."
The name later changed to Lola and Rudy Perpich Minnesota Center for Arts Education Board (1996 Minn. Laws Chap. 412 Art. 9 Sec. 19). In 2000 the name changed to Board of the Perpich Center for Arts Education (1999 Minn. Laws Chap. 241 Art. 10 Sec. 8).
In July 2013, the Perpich Center took over management of Crosswinds Arts and Science School (Crosswinds), a public, year-round arts and science integration school for sixth grade through tenth grade students. Effective July 2014, 2014 Minn. Laws Chap. 294 Art. 2 Sec. 20 Subd. 2 officially conveyed management of the school to the Perpich Center.