The invention relates to a method for processing yak bones by biotechnology. The method comprises the following steps: step 1, crushing yak bones to 3cm-6cm, putting the crushed yak bones into a cooking pot and performing high temperature and high pressure extraction to obtain oil-containing bone soup and oil-containing bone dregs; step 2, preparing the oil-containing bone soup obtained in the step 1 into ossein oligopeptide, and specifically, sequentially performing the following steps: soup-oil separation, protease hydrolysis, tubular centrifugal separation, filtration by an ultrafiltrationmembrane, discoloration and deodorization, concentration by a nanofiltration membrane and centrifugal spray drying; and step 3, preparing the oil-containing bone dregs obtained in the step 1 into superfine fresh bone meal, and specifically, sequentially performing the following steps: primary crushing, secondary crushing, ultra-high-pressure homogenization, protease hydrolysis, horizontal centrifugal separation, thick pulp dilution and centrifugal spray drying.