We present a joint theoretical and experimental study of the time evolution of electronic states of highly charged hydrogenic ions formed by capture during transmission through solids as they undergo multiple collisions and radiative decay. For this transport problem we have developed an inhomogeneous nonunitary Lindblad master equation that allows for a description of open quantum systems with both sinks (electron loss) and source (capture) present. We apply this theoretical framework to study transient coherences created in electron capture by 13.6 MeV/amu Ar18+ ions transmitted through amorphous carbon foils and decoherence during subsequent interaction with the foil. In the limit of thin targets we can directly probe electron capture cross sections under single collision conditions, while for thicker targets we follow the partially coherent dynamics of the open quantum system in interaction with the solid as a function of interaction time. The calculated results are in close agreement with experimental data obtained at the LISE facility in GANIL. Photon intensities from excited argon ions were determined through high resolution x-ray spectroscopy in which individual fine structure components were resolved. Measurements were performed for a wide range of carbon foil thickness to study the time development of the excited state populations