Results of zircon geochronology and Sr, Nd and Pb isotope investigations carried out on granitoid rocks from the boundary of the Saharan Metacraton with the Arabian–Nubian Shield (ANS) reveal a protracted, partly pre-Pan-African geodynamic evolution and the existence of crustal terranes of different ancestries. (Meta)granitoids and gneisses in north-central Bayuda Desert record a 920–900 Ma orogenic event, hitherto unrecognized in northeastern Africa. This early Neoproterozoic Bayudian event is restricted to a pre-Pan-African crustal terrane which appears only slightly affected by Pan-African tectogenesis and deformation, named here the Rahaba–Absol terrane. Within this terrane, amphibolite-facies metamorphism occurred at 921 ± 10 Ma in the El Melagi muscovite–biotite gneiss of the Rahaba Series, probably during a collisional phase; followed by the intrusion of the Absol medium-K granite–granodiorite pluton discordantly emplaced at 900 ± 9 Ma into high-grade schists and amphibolites of the metavolcanosedimentary Absol Series. Nd T DM model ages (2040–2430 Ma) and ages of rounded zircon cores (1060, 1980, 2540 and 2675 Ma) of the El Melagi gneiss indicate a predominantly late Archaean to Palaeoproterozoic source region and suggest a latest Mesoproterozoic to early Neoproterozoic depositional age of its pelitic precursor sediment. The post-collisional Absol pluton has isotope characteristics ( ɛ Nd 900 of −0.3 to −4.3, T DM model ages: 1300–1830 Ma, SrIR 900 of 0.7028–0.7055, 207Pb/ 204Pb of 15.66–15.81) indicating assimilation of old pre-Neoproterozoic crust. The Rahaba–Absol terrane is part of the Saharan Metacraton and is in tectonic contact with the high-grade metamorphic Kurmut terrane of eastern Bayuda Desert. The Kurmut terrane has juvenile Neoproterozoic isotope characteristics, its granitoids record only Pan-African orogenic events and it is therefore considered a part of the Arabian–Nubian Shield. Within the Kurmut terrane the Dam Et Tor medium-K epidote–biotite gneiss gave a concordant zircon age of 858 ± 9 Ma, interpreted as the crystallization age of the volcanic/subvolcanic precursor of the gneiss. Isotopic data of the Dam Et Tor gneiss ( ɛ Nd 858 of 5.7–6.1, T DM model ages: 860–900 Ma, SrIR 858 of 0.7026–0.7028, 207Pb/ 204Pb of 15.46) indicate a depleted mantle source and an oceanic arc magmatic environment. The age of the amphibolite-facies metamorphism and deformation of the Dam Et Tor gneiss and its enclosing metavolcanosedimentary Kurmut Series is best approached by a Sm–Nd isochron age (806 ± 19 Ma; Küster and Liégeois [Küster, D., Liégeois, J.P., 2001. Sr, Nd isotopes and geochemistry of the Bayuda Desert high-grade metamorphic basement (Sudan): an early Pan-African oceanic convergent margin, not the edge of the East Saharan ghost craton? Prec. Res., 109, 1–23]). Both the Rahaba–Absol and the Kurmut terrane of the Bayuda Desert are intruded by post-collisional high-K granitoid magmatism of late Pan-African age, with no intermediate events recorded. The An Ithnein pluton that intrudes the pre-Pan-African Rahaba–Absol terrane is dated at 597 ± 4 Ma. The isotope characteristics of this pluton ( ɛ Nd 600 of −1.5 to 2.4, T DM model ages: 910–1190 Ma, SrIR 600 of 0.7011–0.7038, 207Pb/ 204Pb of 15.59–15.69) and that of the Nabati pluton intruding the Kurmut terrane ( ɛ Nd 600 of 0.1–4.5, T DM model ages: 750–1050 Ma, SrIR 600 of 0.7032–0.7036, 207Pb/ 204Pb of 15.56–15.60) indicate a derivation from a juvenile crustal source or the mantle with limited assimilation of older crust. Post-collisional late Pan-African granite plutons at Sabaloka, south of Bayuda Desert, are distinguished into high-K and shoshonitic suites. The Banjedid high-K pluton was emplaced at 605 ± 4 Ma, while the Babados shoshonitic pluton intruded at 591 ± 5 Ma. Magmatic zircons from both plutons have rims with low Th/U ratios, suggesting a HT metamorphic event contemporaneous with magma emplacement. Both granitoid suites have isotopic characteristics ( ɛ Nd 600 of −8.3 to −2.1, T DM model ages: 1160–1560 Ma, SrIR 600 of 0.7029–0.7069, 207Pb/ 204Pb of 15.72–15.81) indicating the assimilation of older pre-Neoproterozoic crust. Sabaloka is thus clearly identified as a part of the Saharan Metacraton but is distinguished from the Rahaba–Absol terrane by a strong Pan-African high-grade metamorphic imprint [Kröner, A., Stern, R.J., Dawoud, A.S., Compston, W., Reischmann, T., 1987. The Pan-African continental margin in northeastern Africa: evidence from a geochronological study of granulites at Sabaloka, Sudan. Earth Planet. Sci. Lett. 85, 91–104] indicating the likely existence of a discrete Sabaloka terrane.