In this paper, we propose a channel-unaware algorithm to suppress the narrowband interference (NBI) for the time synchronization, where multiple antennas are equipped at the receiver. Based on the fact that the characteristics of synchronization signal are different from those of NBI in both the time and spatial domain, the proposed algorithm suppresses the NBI by utilizing the multiple receive antennas in the eigen domain of NBI, where the eigen domain is obtained from the time domain statistical information of NBI. Because time synchronization involves incoherent detection, the proposed algorithm does not use the desired channel information, which is different from the eigen domain interference rejection combining (E-IRC). Simulation results show, compared with the traditional frequency domain NBI suppression technique, the proposed algorithm has about a 2 dB gain under the same probability of detection.