An NMR pulse sequence was designed to accurately measure the diffusion rates of intermolecular zero-quantum coherences (ZQCs) and double-quantum coherences (DQCs) in two-component spin systems. The Gaussian phase distribution approximation was employed to describe the behavior of intermolecular ZQCs and DQCs as they underwent unrestricted isotropic diffusion. Our experimental and theoretical results demonstrate that intermolecular ZQCs and DQCs evolve with the same diffusion rates. Uncorrelated phases between individual spins on different molecules in intermolecular ZQCs and DQCs are suggested as the cause for their unconventional diffusion behavior. The differences in diffusion rates between inter- and intramolecular ZQCs or DQCs are explained.