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Abstract We study the evolution of isolated self-interacting dark matter (SIDM) halos that undergo gravothermal collapse and are driven deep into the short-mean-free-path regime.We assume spherical Navarro-Frenk-White (NFW) halos as initial conditions and allow for elastic dark matter self-interactions.We discuss the structure of the halo core deep in the core-collapsed regime and how it depends on the particle physics properties of dark matter, in particular, the velocity dependence of the self-interaction cross section. We find an approximate universality deep in this regime that allows us to connect the evolution in the short- and long-mean-free-path regimes, and approximately map the velocity-dependent self-interaction cross sections to constant ones for the full gravothermal evolution. We provide a semi-analytic prescription based on our numerical results for halo evolution deep in the core-collapsed regime.Our results are essential for estimating the masses of the black holes that are likely to be left in the core of SIDM halos.