The stratigraphic framework of the Neogene fossil vertebrate bearing formations of the Indonesian island Sulawesi and Flores is established and the sediments are dated by means of marine micropaleontological and/or palaeomagnetic methods. The results allow comparison of the fauna evolution on these islands with the better known fauna succession of Java. On both Sulawesi and Flores remains of large mammals and reptiles were excavated from fossil-rich layers, documenting the composition of large vertebrate faunas fairly well. For Sulawesi this procedure allows distinction of separate fauna units which formerly had been lumped together. Both on South-Sulawesi and Flores 3 successive faunas can be distinguished. The oldest terrestrial faunas have recorded ages of 2.5 Ma and 0.9 MA, respectively. On both islands intermediate faunas have a middle Pleistocene age, while the youngest faunas are sub recent to Recent.