In this Snowmass whitepaper, we describe the impact of ongoing and proposed intensity frontier experiments on the parameter space of the Minimally Supersymmetric Standard Model (MSSM). We extend a set of phenomenological MSSM (pMSSM) models to include non-zero CP-violating phases and study the sensitivity of various flavor observables in these scenarios Future electric dipole moment and rare meson decay experiments can have a strong impact on the viability of these models that is relatively independent of the detailed superpartner spectrum. In particular, we find that these experiments have the potential to probe models that are expected to escape searches at the high-luminosity LHC.