The invention provides a satellite navigation antenna with electromagnetic protection. The antenna comprises a low noise amplifying module and a down conversion module. The low noise amplifying module comprises a prefilter, an anti-burndown circuit, an LNA, a filter and an RF amplifier, wherein the prefilter, the anti-burndown circuit, the LNA, the filter and the RF amplifier are successively arranged. The down conversion module comprises a mirror image filter, an AGC control loop, an ADC circuit and an interference detecting decision module. The AGC control loop reduces low-channel gain or switches off the channel for eliminating impact of a residual interference. The interference detecting decision module comprehensively considers action time, periodicity, analog AGC starting mark and signal upper-and-lower edge gradient value of input data, thereby determining type and magnitude of the interference, and executing different kinds of interference processing. The satellite navigation antenna improves survival capability of a navigation receiver under a high-power microwave weapon (HPM) attack, and furthermore ensures service functions of navigation positioning, speed measuring, timing, etc.