Nepenthes micramphora has no confirmed natural hybrids, although certain plants from Mount Hamiguitan may represent crosses involving it and N. hamiguitanensis, N. justinae (previously identified as N. mindanaoensis), and N. peltata.McPherson, S.R. & V.B. Amoroso 2011. Field Guide to the Pitcher Plants of the Philippines. Redfern Natural History Productions, Poole. Plants that were originally thought to represent a natural hybrid between N. micramphora and N. peltata are now recognised as belonging to a distinct species of possible hybridogenic origin, N. hamiguitanensis.
