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We present complete results for the hadronic vacuum polarization (HVP) contribution to the muon anomalous magnetic moment $a_{\mu }$in the short- and intermediate-distance window regions, which account for roughly 10% and 35% of the total HVP contribution to $a_{\mu }$, respectively. In particular, we perform lattice-QCD calculations for the isospin-symmetric connected and disconnected contributions, as well as corrections due to strong-isospin breaking. For the short-distance window observables, we investigate the so-called log-enhancement effects as well as the significant oscillations associated with staggered quarks in this region. For the dominant, isospin-symmetric light-quark-connected contribution, we obtain $a_{\mu }^{ll,\mathrm{SD}}\left(\mathrm{conn}\right)=48.139\left(11{)}_{\mathrm{stat}}\right(91{)}_{\mathrm{syst}}[92{]}_{\text{total}}\times {10}^{-10}$and $a_{\mu }^{ll,\mathrm{W}}\left(\mathrm{conn}\right)=206.90\left(14{)}_{\mathrm{stat}}\right(61{)}_{\mathrm{syst}}[63{]}_{\text{total}}\times {10}^{-10}$. We use Bayesian model averaging to fully estimate the covariance matrix between the individual contributions. Our determinations of the complete window contributions are $a_{\mu }^{\mathrm{SD}}=69.05\left(1{)}_{\mathrm{stat}}\right(21{)}_{\mathrm{syst}}[21{]}_{\text{total}}\times {10}^{-10}$and $a_{\mu }^{\mathrm{W}}=236.45\left(17{)}_{\mathrm{stat}}\right(83{)}_{\mathrm{syst}}[85{]}_{\text{total}}\times {10}^{-10}$. This work is part of our ongoing effort to compute all contributions to HVP with an overall uncertainty at the few-permille level. Published by the American Physical Society2025