 Whipple was memorialized with the naming of two forts, Fort Whipple, Arizona Territory and Fort Whipple, Arlington County, Virginia (now Fort Myer).In California, Whipple Peak was named in his honor by Joseph C. Ives, a surveyor who served with Whipple on the Mexican boundary survey.Subsequently, the Whipple Mountains and the Whipple Mountains Wilderness were named after him.