The invention discloses a multi-mode micro-imaging system and method based on an LED array. The LED array serves as a microscope system light source and generates controllable multi-angle illumination light and a controllable illumination pore diameter, and bright field imaging, dark field imaging and difference phase contrast imaging are achieved. The realizable multi-mode imaging includes the three imaging modes of bright field imaging, dark field imaging and difference phase contrast imaging, and while bright field imaging, dark field imaging and difference phase contrast imaging are achieved, it is unnecessary to add any additional optical elements into the imaging path of a traditional microscope; in this way, an optical system is greatly simplified, and the LED array enables the microscope to have the capacity of flexibly adjusting the illumination pore diameter, the illumination angle and light source coherence.