The invention discloses a preparation method of black fungus apple vinegar, which comprises the following steps: 1. inoculating a black fungus strain in a basal culture medium, and culturing at 28 DEG C for 7 days; 2. inoculating the activated strain into a sterilized liquid culture medium, standing at room temperature for 24 hours, putting into an oscillator, and culturing at 30 DEG C at the rate of 150 rpm for 8 days; 3. carrying out wall-breaking homogenization on the strain subjected to amplification culture twice, blending with apple juice subjected to heating sterilization, inoculating yeast to perform alcohol fermentation, and inoculating vinegar bacteria to perform acetic fermentation; and 4. after the fermentation finishes, filtering to obtain the black fungus apple vinegar. By utilizing the submerged fermentation technique, the method has the advantages of high productive capacity, small occupied area, short period and high controllability. The obtained product ingeniously combines the health care functions of the black fungus and fruit vinegar, has abundant nutrients and good taste, has the functions of nourishing and strengthening the body, enhancing the immunity and the like, and has higher nutritive value.