In this paper, we numerically study the scattering of kinks in the noncanonical sine-Gordon model using Fourier spectral methods. The model depends on two free parameters, which control the localize inner structure in the energy density and characteristic of the scattering potential. It has been conjectured that the kink solutions in the noncanonical model possess inner structures in their energy density, and the presence of this yield bound states and resonance structures for some relative velocities between the kink and the antikink. We pursue the question of whether the presence of these inner structures in the noncanonical sine-Gordon model will yield bound states and resonance structures in the scattering of the kink and antikink.