Spore morphology of Polypodiaceae and Grammitidaceae from Taiwan were studied with light microscope and scanning electron microscope. Totally 18 genera and 62 species were observed. Polypodiaceae spores are ellipsoidal and monolete except Loxogramme grammitoides; with spore ornamentation tuberculate, verrucate, echinate, globule, rugate, undulate, foveolate and/or vermiculate. Grammitidaceae spores are global, trilete with spore ornamentation granulate, tuberculate and/or globules. The spore surface ornamentation can be used as taxonomic characters in Polypodiaceae and Grammitidaceae at familial, genera and species levels. Based on spore characters, Polypodiaceae and Grammitidaceae can be differentiated, Loxogrammeae and Drynariaeae are not separable from the rest of Polypodiaceae, and the current classification system of Lepisorieae and Microsoreae are not .internal consistent.