The southern highlands of the Moon comprise superposed ejecta layers, individually as thick as a few kilometers, from the major basins. Smaller (1–16-km-diameter) impact craters that penetrate this layered megaregolith and excavate material from depth have radar properties that provide insight into the variability of megaregolith thickness above a postulated basement of large crustal blocks. We observe a significant difference in the population of radar-bright craters, 1–16 km and larger in diameter, between regions of the southeastern near-side highlands north and south of ~lat 48°S. There are about one-third more radar-bright craters north of this line than to the south, broadly coincident with the mapped boundary between southern deposits mapped as pre-Nectarian age and those of Nectarian–Imbrian age to the north. The radar-bright crater population is consistent with a megaregolith thickness of ~1.5 km in the north and ~2.5 km in the south, a difference we attribute to South Pole–Aitken basin ejecta.