The invention discloses a parallel LED drive method based on three-dimensional display and a system thereof. A whole LED screen is divided into M rows*N lists of sub-screens; each sub-screen includes I rows*j lists of color LED pipes; each sub-screen is corresponding with one drive circuit; and images on every sub-screen are all displayed in parallel. Every drive circuit sends a list of image signals in the sub-screen to a list of LEDs on the sub-screen to ensure that a list of LEDs are displayed at the same time; and the display of the images of the whole sub-screen is realized by scanning different lists in sequence. A PC machine is connected with a PCI-E bridge, an electro-optic conversion module, a photoelectric conversion module, a main control field programmable gate array, a distribution field programmable gate array, an LED drive chip and an LED screen orderly. The distribution field programmable gate array is connected with a multi-path gating apparatus module, a high power apparatus module and the LED screen. The invention realizes the high speed transmission, storage, processing and display of mass data, improves the refresh rate of the image greatly as well as the brightness and resolution of the screen.