In 1999, the museum was accredited by the American Association of Museums (now the American Alliance of Museums). By 2016, the non-profit museum drew 170,000 visitors per year. In 2017, the High Desert Museum was selected as Smithsonian Affiliate institution. That designation gives the museum access to artifacts from the Smithsonian collection along with Smithsonian sponsored traveling exhibits and education programs. In Oregon there are only three Smithsonian Affiliate institutions. The other two are the Evergreen Aviation and Space Museum in McMinnville and the Rice Northwest Museum of Rocks and Minerals in Hillsboro.