The invention relates to a capsule enteroscope system with a two-way night vision camera. The system comprises a capsule enteroscope with the two-way night vision camera, a vitro receiving device and a computer system, wherein the capsule enteroscope with the two-way night vision camera structurally comprises a shell with a sealing effect, a first vision module, an image processing module, a power supply module, a subsidiary mechanism, a memory and communication module and a second night vision module, wherein the first vision module, the image processing module, the power supply module, the subsidiary mechanism, the memory and communication module and the second night vision module are arranged in the housing. According to the system, images of gastrointestinal tracts and between gastrointestinal tract walls can be obtained in an omnibearing and multi-angle way by observing gastrointestinal cavities and gastrointestinal walls in either a dark condition or a shimmer condition, and the images in a light condition or the images in either the dark condition or the shimmer condition can be compared and analyzed by the system, so that gastrointestinal tracts and related diseased gastrointestinal can be comprehensively and objectively known, thereby enriching the ways of intestinal tract observation and diagnosis, and enabling diagnosis results to be more accurate.