The invention discloses a heat treatment method of amorphous alloy cores, which comprises the following steps: measuring the temperature of a heat treatment furnace with a temperature sensor; monitoring the real-time temperature of a plurality of the amorphous alloy cores to be treated by a plurality of additional temperature sensors; and adjusting the heating power of the heat treatment furnace in real time according to the measured furnace temperature and the real-time temperature of the plurality of amorphous alloy cores. In the invention, the real-time temperature of the plurality of amorphous alloy cores is monitored with the plurality of temperature sensors and the heating power of the heat treatment furnace is adjusted correspondingly, thus ensuring heating uniformity and synchronization of the amorphous alloy cores during the heat treatment process, effectively improving the performance of the amorphous alloy core product, greatly enhancing the product qualification rate and obviously increasing the economic benefit.