Pyrenula media is a species of corticolous (bark-dwelling) crustose lichen in the family Pyrenulaceae. Described as a new species in 1997 by André Aptroot, it is found in the Madang Province of Papua New Guinea. The type specimen was collected by Aptroot from the Yupna valley in Finisterre Range, where it was found on a tree in a mossy mountain forest at an elevation between 2,300 and 2,750 m. The lichen has also been recorded from Sri Lanka.