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Variations in the number and arrangement of scutes often are used for species identification in hard-shelled sea turtles. Despite the conserved nature of scute arrangements, anomalous arrangements have been noted in the literature for over a century, with anomalies linked to sub-optimal environmental conditions in the nest during development. Long-held assumptions suggest that anomalous scute arrangements are indicative of underlying physiological or morphological anomalies, with presumed long-term survival costs to the individual. Here, we examined a 25-year photo database of two species of sea turtle (Caretta caretta and Chelonia mydas) captured incidentally and non-selectively on the eastern coast of Florida. Our results suggest that C. mydas is substantially more variable with respect to the arrangement of carapacial scutes, while C. caretta had a relatively higher proportion of individuals with anomalous plastron scute arrangements. We also show evidence that (a) the forms and patterns of anomalous scutes are stable throughout growth; (b) there is limited evidence for selection against non-modal arrangements in the size classes that were examined; and (c) that their frequency has remained stable in juvenile cohorts from 1994 until present. These findings indicate that there may not be a survival cost associated with anomalous scute arrangements once the turtles reach juvenile size classes, and that variation in scute arrangements within populations is relatively common., (© 2020 Wiley Periodicals LLC.)