We describe two new species of treefrogs of the Boophis goudoti species group mainly based on analyses of morphology and molecular genetics. Boophis popi sp. n. is characterized by a red iris and distinctly elevated reticulations on the dorsum. It is distributed in submontane rainforest between 1000–1500 m above sea level. Boophis fayi sp. n. is unique among the species in the B. goudoti group by exhibiting a green outer iris in life and males lacking a distinct supratympanic fold. It occurs in lowland rainforests of northeastern Madagascar. Both species differ by substantial genetic differentiation in the 16S mRNA gene fragment from known members in the species group: > 8% and > 6% pairwise divergence, respectively, whereas the minimum pairwise divergence between the two new species is 5.3%. The advertisement calls of both species are rather similar to those of other small to medium-sized members of the B. goudoti group.