In the degumming process of crude soybean oil by phospholipase A1 (PLA1), the content of free fatty acids (FFA) in the product increases excessively. In this study, PLA1 was used to hydrolyse simulated crude soybean oil. It was found that the acyl group at the sn-2 position migrated to the sn-1 position, the content of FFA in the oil was as high as 1.26 ± 0.03 g/100 g, and the acyl migration rate was up to 38.9 ± 0.10% after 2.8 h. Under the conditions of H3BO3 addition of 2 g/100 g, pH of 5, enzymatic hydrolysis temperature of 50 °C and enzymatic hydrolysis time of 2 h, the acyl migration rate of sn-2-HPA was 16.8 ± 0.50%, the content of FFA was 1.14 ± 0.02 g/100 g, and the enzymatic hydrolysis efficiency was increased by 28.57 ± 0.07%.