The invention belongs to the field of manufacturing processes of flexible micro-nano structures, and discloses a method for preparing a highly durable super-hydrophilic water collecting flow channel structure based on a flexible substrate. The method comprises the following steps of 1, photoetching and developing; 2, removing residual adhesive and activating the surface of the flexible substrate;3, plating a Cu seed layer, wherein the Cu seed layer is sputtered on the upper surface of the flexible substrate and the upper surface and side surface of negative photoresist by magnetron sputtering; 4, removing the photoresist; 5, growing Cu(OH)2 nanowires and a CuO nanosheet layered structure, wherein the flexible substrate on which the Cu seed layer is deposited is placed in a mixed solutionof NaOH and (NH4)2S2O8 to grow the ultra-hydrophilic Cu(OH)2 nanowires and the CuO nanosheet layered structure on the Cu seed layer, and the super-hydrophilic water collecting flow channel structureis obtained correspondingly. The structure prepared by the method has superhydrophilic properties and excellent flexibility and durability, is suitable for water vapor collection in arid regions, andis expected to be used on water collecting devices in deserts.