Abstract: This study compares the simulation results of transmission performances between polymeric waveguide system and silica fiber waveguide system. These two waveguides were designed to have double layer transmission system. Polymeric waveguide showed-0.132dB loss, but silica fiber waveguide showed-3.0dB. Eye diagrams, crosstalks and BER of two systems are compared by Matlab code and polymeric waveguide system showed better signal shape and crosstalk than silica waveguide system.