Dietary preferences of extant reptiles can be directly observed, whereas diet reconstruction of extinct species typically relies on morphological or dental features. More specific information about the ingested diet is contained in the chemistry of hard tissues. Stable isotopes of calcium and strontium show systematic fractionations between diet and skeletal bioapatite, which is applied for diet and trophic-level reconstructions of extant and extinct vertebrate species. Here, we present the first comprehensive analysis of stable calcium and strontium isotopes of bones and teeth from 28 extant reptiles, including lepidosaurs and archosaurs (crocodilians) with distinct herbivorous to faunivorous feeding behaviour, establishing a dietary reference frame. Both calcium and strontium isotopes exhibit systematic offsets between dietary groups, with insectivores having the highest, herbivores intermediate and carnivores the lowest calcium and strontium isotope values. Although the isotopic trophic-level effect is similar to mammals, the absolute calcium isotope values in reptiles are more positive in each diet category. Combining isotopic data with dental microwear texture analysis enables a refined understanding of reptile feeding ecology and the identification of durophagous diets. This toolbox opens new possibilities for improved dietary reconstructions of extinct taxa, such as dinosaurs and other non-mammalian species in the fossil record.