The application of conventional spread spectrum techniques for conducted electromagnetic emission (EME) reduction in inductive-resonant wireless power transfer (WPT) systems may not reduce conducted EME enough due to specific frequency characteristics of the resonant systems and it can lead to some “adverse effects”, mainly in terms of decreased efficiency. Therefore, in this paper, an improved spread spectrum approach, multi-switching frequency and multi-duty cycle (MFMD) technique, is proposed. The proposed approach can give a considerably better conducted EME reduction along with a better efficiency than the conventional spread spectrum techniques based on a multi-switching frequency scheme. In the proposed approach, the inductive-resonant WPT system can operate at multiple switching frequencies (e.g., three different frequencies) and for a part of a control signal with a specific switching frequency, there is a specific duty cycle. The technique can be implemented in a simple way using an inexpensive 8-bit microcontroller. The effect of the MFMD scheme on the conducted EME and efficiency of the WPT system is studied in detail. The WPT system conducted EME and the efficiency are studied experimentally with a designed laboratory prototype. The performance characteristics of the WPT system with the MFMD scheme are compared to those with the multi-switching frequency scheme and without the spread spectrum. The WPT system with the proposed spread spectrum technique has a better performance than that with the conventional spread spectrum technique.