Thermal decomposition of layered zinc hydroxides (LZHs) is a simple and convenient way to achieve porous ZnO nanostructures. The type of anion contained in an LZH determines the fundamental characteristics of the LZH and thus affects the formation process of the resulting porous ZnO. Here we report a comparative study on the crystal orientation relationship between LZH precursors and the corresponding porous ZnO products by using well-faceted and highly oriented LZH crystals with three different anions, i.e., NO3-, SO42-, and Cl-. Highly oriented LZH crystals were prepared on layer-by-layer coated indium tin oxide substrates by electrodeposition in aqueous solution and were transformed into porous ZnO by calcination in air. The synthesized materials were characterized by X-ray diffraction, scanning electron microscopy with electron backscatter diffraction, Fourier transformed infrared spectroscopy, and X-ray photoelectron spectroscopy. The layered structure of the highly oriented LZHs was parallel to the substrate surface and all transformed to nanoporous ZnO with a ⟨0001⟩ preferred orientation. The ⟨0001⟩ orientation degree and in-plane orientation of the nanoporous ZnO differed significantly depending on the type of anion but not the decomposition temperature, revealing that the initial formation process of ZnO from the LZHs is crucial. Finally, a possible transformation mechanism explaining the difference in the resulting ZnO orientation by anions (NO3-, SO42-, and Cl-) is discussed on the basis of their layered structure and thermal decomposition processes.