We present a theory which is able to explain enhanced magnetic quantum-oscillation amplitudes in the superconducting state of a layered metal with incoherent electronic transport across the layers. The incoherence acts through the deformation of the layer-stacking factor which becomes complex and decreases the total scattering rate in the mixed state. This novel mechanism can compensate the usual decrease of the Dingle factor below the upper critical magnetic field caused by the intralayer scattering.