A novel multipath mitigation algorithm for binary offset carrier (BOC) signals in the global navigation satellite system (GNSS) is presented. Based on the W2 code correlation reference waveform (CCRW) structure, a series of bipolar reference waveforms (BRWs) is introduced to shape the unambiguous s-curve. The resulted s-curve has a single stable zero-crossing point such that the tracking unambiguity in BOC (1,1) can be solved. At the same time, multipath mitigation capability is improved as well. As verified by simulations, the proposed method matches the multipath mitigation performance of W2 CCRW, and is superior to conventional receiver correlation techniques. This method can be applied in GPS L1 and Galileo E1.