During the mid to late 20th century, several colleges named buildings, physical features, awards, and professorships after Millikan. In 1958, Pomona College named a science building Millikan Laboratory in honor of Millikan. After reviewing Millikan's association with the eugenics movement, the college administration voted in October 2020 to rename the building as the Ms. Mary Estella Seaver and Mr. Carlton Seaver Laboratory.
On the Caltech campus, several physical features, rooms, awards, and a professorship were named in honor of Millikan, including the Millikan Library, which was completed in 1966. In January 2021, the board of trustees voted to immediately strip Millikan's name from the Caltech campus because of his association with eugenics. The Robert A. Millikan Library has been renamed Caltech Hall. In November 2021, the Robert A. Millikan Professorship was renamed the Judge Shirley Hufstedler Professorship.