We investigate the spontaneous rearrangement of microdroplets in a self-assembled droplet cluster levitating over a thin locally heated water layer. The center-to-periphery droplet diameter ratio (the “inversion coefficient”) controls the onset of the inversion. Larger droplets can squeeze between smaller ones due to increased drag force on them from the air–vapor flow. In smaller clusters, the rotation of the droplets plays an important role since larger droplets rotating with the same angular velocity (dependent on the rotor of the airflow field) have higher viscous friction force with the liquid layer. It is desirable to avoid cluster inversion in experiments where individual droplet positions should be traced.