The usual form of
cylindropuntia whipplei is an upright shrub, 5 feet or more high, with many 3 to 6 inch stems branching from a woody central trunk, though the plant also has a low-growth variant, found in less favorable environments, where the stems are shorter, stay close to the ground and may have fewer spines. Stems are bright green or sometimes purplish green, bearing distinct tubercles and clusters of three to eight white or yellowish spines, each between 1 and 2 inches long. The spines do not completely cover the stems.
Plants bloom from late spring to mid summer. Inner tepals are yellow, outer tepals greenish-yellow. Filaments and anthers are yellow, the stigma pale yellow, pale green or almost white. Fruits are greenish, up to 1.3 inches long, and spineless.
Whipple cholla is very frost tolerant, found at higher elevations (up to 8,000 feet) and further north than most other species. It most closely resembles
silver cholla, but the range of the two species overlaps only in a small area around Kingman, and the whipple cholla is somewhat less spiny. Another difference is the spineless, knobbly fruit; silver cholla fruit is very spiny, and has larger bumps. This species is the only cholla in most of its range - north Arizona and the Four Corners region.