The family Gobiidae is the largest family of marine fishes, yet microhabitats of most gobies are poorly known. We sampled different coral reef macrohabitats from Jamaica and Grand Cayman to identify microhabitats occupied by three species of the genus Elacatinus. Elacatinus gemmatus and Elacatinus pallens were found in association with burrows created by the chiton, Choneplax lata. Between island differences in microhabitats occupied by Elacatinus dilepis could represent a shift because of reef degradation in Jamaica.