Some disagreement exists over which genera should be included in the Rauisuchidae and which should be in the related Prestosuchidae and Poposauridae, and indeed whether these should even be thought of as separate valid families.

Rauisuchidae in the modern sense was defined by Sterling Nesbitt in 2011 as the most inclusive clade containing Rauisuchus tiradentes, but not Prestosuchus chiniquensis, Poposaurus gracilis, or Crocodylus niloticus (the Nile crocodile).

[2] In this modern sense, rauisuchids are recovered as members of the clade Loricata, being the sister taxon of Crocodylomorpha (the group including living crocodilians), and being more derived than taxa such as Prestosuchus and Batrachotomus.

[3] An early cladistic analysis of crocodylotarsan (pseudosuchian) archosaurs included Lotosaurus, Fasolasuchus, Rauisuchus, and "the Kupferzell rauisuchid" (later called Batrachotomus) within the Rauisuchidae.

[5] In addition, the toothless Lotosaurus has been found to be more closely related to the Ctenosauriscidae, a clade of poposauroids with sails on their backs.