Hidden geometry enables the investigation of complex networks at different scales. Extending this framework to multiplex networks, we uncover a different kind of mesoscopic organization in real multiplex systems, named clan, a group of nodes that preserve local geometric arrangements across layers. Furthermore, we reveal the intimate relationship between the unfolding of clan structure and mutual percolation against targeted attacks, leading to an ambivalent role of clans: making a system fragile yet less prone to complete shattering. Finally, we confirm the correlation between the multiscale nature of geometric organization and the overall robustness. Our findings expand the significance of hidden geometry in network function, while also highlighting potential pitfalls in evaluating and controlling catastrophic failure of multiplex systems.
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