Volume holography has been widely investigated for information storage and other applications. An increase in the number of multiplexed holograms leads to dynamic range loss when they are optically recorded. Computer generated holograms can achieve better performance if constructed voxel-by-voxel or as a multilayer structure. Advancements in 3D printing enabled the fabrication of multilayered diffractive elements in the micro-scale. To obtain an accurate design, we deploy the Learning Tomography (LT) method, which is an optimization algorithm for computationally imaging 3D distribution of the refractive index. Here, instead of imaging an object, we define a 3D structure that achieves a desired functionality.