Using non-equilibrium Green's function method and keeping the zigzag carbon chains unchanged, we investigate the transmission rate of acoustic phonon and the reduced thermal conductance in the graphene nanoribbons with three cavities. The results show that the reduced thermal conductance approaches to 32kB2 T/(3h) in the limit T0 K. Due to the fact that only long wavelength acoustic phonons with zero cutoff frequency are excited at such low temperatures, the scattering influence on the long wavelength acoustic phonons by the dislocation distribution of three cavities in the graphene nanoribbons can be ignored and these phonons can go through the scattering region perfectly. As the temperature goes up, the reduced thermal conductance decreases. This is because the high-frequency phonons are excited and these high-frequency phonons are scattered easily by the scattering structures. With the further rise of temperature, acoustic phonon modes with the cutoff frequency greater than zero are excited, which leads to a rapid increase of the reduced thermal conductance. This study shows that in higher frequency region, the transmission spectra display complex peak-dip structures, which results from the fact that in higher frequency region, more phonon modes are excited and scattered in the middle scattering region with three cavities, and the scattering phonons are coupled with the incident phonons. When the three cavities are aligned perpendicularly to the edge of the graphene nanoribbons, the scattering from low-frequency phonons by the scattering structures is smallest, which leads to the fact that the reduced thermal conductance is largest at low temperatures; however, at high temperatures, the reduced thermal conductance is smallest when the three cavities is aligned perpendicularly to the edge of the graphene nanoribbons. This is because the scattering from high-frequency phonons by the scattering structures is biggest. These results show that the acoustic phonon transport and the reduced thermal conductance are dependent on the relative position of the three cavities. In addition, the dislocation distribution of the three cavities can only modulate obviously the high-temperature thermal conductance of the in-plane modes (IPMs). This is because the change of the relative position of the quantum dots can only modulate greatly the high-frequency phonon transmission rate and less modulate the low-frequency phonon transmission rate of the IPMs. However, the dislocation distribution of the three cavities can adjust obviously not only the high-temperature thermal conductance of the flexural phonon modes (FPMs), but also the low-temperature thermal conductance of the FPMs. This is because the change of the relative position of the three cavities can modulate greatly phonon transmission rates of flexural phonon modes in the low-frequency and high-frequency regions. These results provide an effective theoretical basis for designing the thermal transport quantum devices based on graphene nanoribbons.