In marine radar target detection, sea clutter will cause a large number of missed alarms and false alarms, which will affect the accuracy of target detection. In order to suppress sea clutter effectively, a sea clutter suppression and target detection algorithm of marine radar image sequence based on spatio-temporal domain joint filtering is proposed in this paper. The proposed method is to add a sea clutter suppression link before detecting the target. Firstly, the marine radar image sequence is transformed into three-dimensional frequency wavenumber domain by three-dimensional fast Fourier transform (3D-FFT), and then the three-dimensional image spectrum is obtained. According to the fact that the sea clutter spectrum obtained from the image spectrum satisfies the dispersion relation of linear wave theory in the three-dimensional frequency wavenumber domain, a sea clutter model is established. Then, through the established sea clutter model, a spatio-temporal domain joint sea clutter suppressor is designed to filter the image spectrum. After that, the filtered image spectrum is transformed by three-dimensional inverse fast Fourier transform (3D-IFFT) to obtain the image sequence in which sea clutter is suppressed. Finally, target detection is carried out for sea clutter suppressed image sequence. The method is validated by using the real data of X-band marine radar. Compared with the classical Empirical mode decomposition (EMD) method, the improvement of signal-to-noise ratio (SNR) is more obvious, and SNR can be increased by 15.3 db at most. In addition, compared with target detection on original images directly, the proposed method has excellent detection rate and can increase detection rates by at least 8%.