In order to improve the compression performance of Bayer CFA images exposed continuously, a new high performance remainder set near-lossless compression method is presented. Based on channel-separated-filtering, several typical Bayer CFA image compression methods are compared with the proposed remainder set algorithm. It is proved that the remainder set algorithm has not only the better compression performance, i.e., the lower bits per pixel (average about 2.16bpp), but also the better reconstructed CFA image PSNR (average about 52.31dB). Finally, the proposed method is employed in a multiple channel CMOS image sampling system and some test results are given.