We calculate the leading radiative corrections to the dark-matter- nucleon scattering in the pseudo-Nambu-Goldstone dark matter model augmented with a second Higgs doublet (S2HDM). In this model, the cross sections for the scattering of the dark-matter on nuclei vanishes at tree-level in the limit of zero momentum- transfer due to a U(1) symmetry. However, this symmetry is softly broken in order to give a mass to the dark-matter particle. As a consequence, non-vanishing scattering cross sections arise at the loop level. We find that the current cross-section limits from dark-matter direct-detection experiments can hardly constrain the parameter space of the S2HDM. However, the loop-corrected predictions for the scattering cross sections can be well within the reach of future direct-detection experiments. As a consequence, future phenomenological analyses of the S2HDM should take into account cross-section predictions beyond tree-level and the experimental constraints from dark-matter direct-detection experiments.