Bakers Square began in December 1969 with a restaurant called "Mrs. C's" in Des Moines, Iowa, that became popular for its pies. Pillsbury purchased Mrs. C's around that time, renamed it "Poppin' Fresh Pies", and opened additional locations. VICORP, owners of the Village Inn restaurant chain, purchased Poppin' Fresh Pies from Pillsbury in 1983 and renamed the chain Bakers Square.
Bakers Square restaurants are primarily found in the Great Lakes area and in California. Except for the Des Moines area, Bakers Square and Village Inn operate in separate markets without overlap. The original Mrs. C's restaurant, on Merle Hay Road in Des Moines, remained in business as a Bakers Square until it closed on April 2, 2008, as parent company VICORP filed Chapter 11 bankruptcy.
The children's menu of Bakers Square features the "Bakers Bunch", including the characters Crusto, Pie Spy, Meringué, Square Baker, L'il Slice, and Pie Pup. The characters were developed by a professional character development company.