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Precise knowledge of nuclear structure is essential across fundamental physics, yet probing these structures is notoriously difficult. To address this challenge, ultra-peripheral collisions (UPCs) provide a femtoscopic tomography for imaging the atomic nucleus. UPCs offer a pristine electromagnetic pathway: coherent vector-meson photoproduction generates patterns of diffraction and two-source interference that directly encode the nuclear spatial density. Turning these patterns into quantitative constraints is, however, a challenging inverse problem, complicated by correlated sensitivities to deformation and neutron skin, phase smearing, and experimental backgrounds. Here we introduce an interpretable Multitask deep-learning framework that maps transverse momentum distributions to multiple nuclear-structure indicators simultaneously and identifies the kinematic regions driving each inference. We demonstrate the approach with coherent $J/\psi$ photoproduction in $^{96}_{40}\text{Zr} + ^{96}_{40}\text{Zr}$ collisions, showing that the learned features separate diffraction-dominated and interference-dominated information and provide analysis-ready observables for future high-luminosity data.