The invention provides a catalyst for hydrogenation conversion of Fischer-Tropsch synthetic wax and a preparation method and application thereof. The catalyst comprises the following components: Ni, Whydrogenation metal, a Y-type molecular sieve, an isomerization molecular sieve and aluminum oxide; the preparation method of the catalyst comprises the following steps: firstly, mixing and pulping aluminum oxide and water, and then sequentially adding a USY molecular sieve and a Ni metal compound to form a mixture; secondly, putting the mixture into a closed reaction kettle for dynamic hydrothermal treatment; thirdly, after treatment, adding an isomerization molecular sieve, fully stirring, filtering, drying, adding dilute nitric acid, performing extrusion molding, and roasting; and finally,impregnating the W metallide by adopting an equivalent-volume impregnation method, drying and roasting to finally obtain the hydrocracking catalyst. The hydrocracking catalyst prepared by the methodprovided by the invention has appropriate acid properties, pore properties and metal dispersibility, can effectively reduce the secondary cracking performance in the hydrocracking process of Fischer-Tropsch synthetic wax, and improves the yield and product properties of light fuel oil.