Hyperodapedontinae was erected by Sankar Chatterjee in 1969 as a coordinate name of the family Hyperodapedontidae Lydekker, 1985. Chatterjee (1969) originally named Hyperodapedontinae to include all Late Triassic rhynchosaurs known at that time, H. gordoni, H. huxleyi and "Scaphonyx" fischeri, and proposed a morphological diagnosis for the clade.Scaphonyx includes two additional species, S. africanus and S. australis, all of which are currently believed to be dubious. As noted by Langer et al. (2000), using Chatterjee' morphological definition would exclude Teyumbaita and H. huenei from the clade, and thus it would be nested within Hyperodapedon. To preserve the name, with its original stratigraphical meaning, Langer et al. (2000) redefined Hyperodapedontinae as a stem-based taxon that includes "all rhynchosaurs closer to Hyperodapedon than to "Rhynchosaurus" spenceri (now Fodonyx)". The cladogram below follows Langer et al. (2000) and Langer et al. (2010):
Valid species that were first assigned to Scaphonyx.
The cladogram below is based on Hone and Benton (2008). Hone & Benton (2008) applied all clade names within the Rhynchosauria to nodes in their topology incorrectly with respect to the definitions proposed by Langer et al. (2000) and Langer et al. (2010). As Hone & Benton (2008) didn't propose alternative definitions, the cladogram below follows Langer et al. (2000) definitions.
^Felipe Chinaglia Montefeltro (2008). "Inter-relações filogenéticas dos rincossauros (Diapsida, Archosauromorpha)". Unpublished Thesis, Biology Department, Universidade de Sa˜o Paulo, Ribeira˜o Preto: 203 pp.
^ abDavid W. E. Hone and Michael J. Benton (2008). "A new genus of Rhynchosaur from the Middle Triassic of South-West England". Palaeontology51 (1): 95–115. doi:10.1111/j.1475-4983.2007.00739.x.
^Chatterjee, Sankar (1969). "Rhyncosaurs in time and Space". Proceedings of the Geological Society of London1658: 203–208.
^ abMax C. Langer and Cesar L. Schultz (2000). "A new species of the Late Triassic rhynchosaur Hyperodapedon from the Santa Maria Formation of south Brazil". Palaeontology43 (6): 633–652. doi:10.1111/1475-4983.00143.