The transmission properties of hybrid quasi-periodic photonic systems (HQPS) made by the combination of one-dimensional periodic photonic crystals (PPCs) and quasi-periodic photonic crystals (QPCs) were theoretically studied. The hybrid quasi-periodic photonic lattice based on the hetero-structures was built from the Fibonacci and Thue-Morse sequences. We addressed the microwave properties of waves through the one-dimensional symmetric Fibonacci, and Thue-Morse system i.e., a quasi-periodic structure was made up of two different dielectric materials (Rogers and air), in the quarter wavelength condition. It shows that controlling the Fibonacci parameters permits to obtain selective optical filters with the narrow passband and polychromatic stop band filters with varied properties which can be controlled as desired. From the results, we presented the self-similar features of the spectra, and we also presented the fractal process through a return map of the transmission coefficients. We extracted powerfully the band gaps of hybrid quasi-periodic multilayered structures, called “pseudo band gaps”, often containing resonant states, which could be considered as a manifestation of numerous defects distributed along the structure. The results of transmittance spectra showed that the cutoff frequency could be manipulated through the thicknesses of the defects and the type of dielectric layers of the system. Taken together, the above two properties provide favorable conditions for the design of an all-microwave intermediate reflector.