Abstract: Ionospheric electron content inversion using Global Navigation Satellite System (GNSS) dual-frequency differential signals is a commonly used means of ionospheric detection. However, the GNSS signal is submerged in electromagnetic noise and cannot be extracted under strong electromagnetic interference, which affects the reliability of the total electron content (TEC) inversion system. The traditional zeroing anti-jamming array antenna scheme can solve the problem of interference source stripping, but due to the unstable antenna phase center of the zeroing signal, resulting in high-precision phase smoothing pseudorange and precise point positioning (PPP) algorithms can not be converged. For the ionospheric monitoring needs strong interference environment, this paper proposes an anti-interference TEC data inversion means through the array antenna channel amplitude-phase consistency correction, to ensure the stability of the phase center, so as to deduce the accurate ionospheric TEC information, which can improve the system reliability and anti-interference ability.