Aetosauroides was proposed to be synonymous with the genus Stagonolepis in 1996 and 2002. Smaller specimens of both species were placed with Stagonolepis robertsoni, and larger specimens were considered to be S. wellesi. This synonymy is not accepted, with several studies identifying unique features that distinguish Aetosauroides from Stagonolepis. Among these are maxillae that do not touch the nostrils, oval-shaped holes on the centra of the vertebrae, and a convex margin of the lower jaw. In a 2011 study, A. subsulcatus and A. inhamandensis were proposed to be synonymous with A. scaglia. A phylogenetic analysis presented by Julia B. Desojo, Martin D. Ezcurra and Edio E. Kischlat in 2012 found that Aetosauroides lies outside Stagonolepididae. If this phylogeny is correct, Stagonolepididae and Aetosauria would not be equivalent groupings, and Aetosauroides would be the first non-stagonolepidid aetosaur.