Cement-based materials play an important role in multi-barrier concepts developed worldwide for the safe disposal of hazardous and radioactive wastes. Cement is used to condition and stabilize the waste materials and to construct the engineered barrier systems (container, backfill and liner materials) of repositories for radioactive waste. In this study, Co uptake by hardened cement paste (HCP) has been investigated with the aim of improving our understanding of the immobilization process of heavy metals in cement on the molecular level. X-ray-absorption spectroscopy (XAS) on powder material (bulk-XAS) was used to determine the local environment of Co in cement systems. Bulk-XAS investigations were complemented with micro-beam investigations to probe the inherent microscale heterogeneity of cement by using μ-X-ray-fluorescence (μ-XRF) and μ-XAS. μ-XRF was used to gain information on the spatial heterogeneity of the Co distribution, whereas μ-XAS was employed to determine the speciation of Co on the microscale. The Co-doped HCP samples hydrated for time-scales from 1 hour up to 1 year were prepared under normal atmosphere, to simulate similar conditions as for waste packages. To investigate the role of oxygen, further samples were prepared in the absence of oxygen. The study showed that, for the samples prepared in air, Co(II) is oxidized to Co(III) after 1 hour of hydration time. Moreover, the relative amount of Co(III) increases with increasing hydration time. The study further revealed that Co(II) is predominately present as a Co−hydroxide-like phase and/or Co−phyllosilicates, whereas Co(III) tends to be incorporated into a CoOOH-like phase and/or Co−phyllomanganates. In contrast to samples prepared in air, XAS experiments with samples prepared in the absence of oxygen revealed solely the presence of Co(II). This finding indicates that oxygen plays an important role for Co oxidation in cement. Furthermore, the study suggests that Co(III) species or Co(III)-containing phases should be taken into account for an overall assessment of the Co release from Co-containing cement-stabilized waste under oxidizing conditions.