Recently there is an increase in interest for using super-regenerative receivers for pulse based communication systems. To receive a pulse using the super-regenerative architecture the pulse needs to be aligned with the zero crossing of the damping co-efficient (which depends on the quench signal) for achieving maximum sensitivity. In general, the pulse to be received is not aligned with the zero crossing of the damping co-efficient. In this paper a novel technique for an automatic alignment of the incoming pulse with the zero crossing in a slope controlled super-regenerative system is proposed. The proof of concept is shown using MATLAB simulations. Also a complete digital delay line architecture for delaying the quench signal which is a critical block in pulse alignment is described.