In this paper, the evolution of char structure during the non-isothermal low temperature pyrolysis of ZhunDong coal under microwave (MW) heating was investigated and compared with that under conventional (CV) heating. The results show that from room temperature to 200 °C, the volatile content in coal decreases from 35.6% to 24.0% by MW-heating although the temperature is lower. Meanwhile, FTIR analysis showed that the normalized value of aliphatic CH of coal increases to 3.38, far exceeding the increment of that under CV-pyrolysis. The carboxyl functional group decreases to 0.7. The normalized value of aromatic CH significantly declines to 0.62. Notably, it rises sharply to 1.22 from 200 °C to 400 °C. These results indicated that MW-pyrolysis promote the breaking of aliphatic side chains below 400 °C. However, the release of functional groups and the evolution of carbon microcrystals of coal under MW-heating is slower than that under CV-heating from 400 °C to 700 °C, which should be related to the directional movement of oxygen free radicals under MW-field. But above 700 °C, the pyrolysis rate of coal under MW-heating accelerates. CV-pyrolysis is more conducive to pore development than MW-pyrolysis. The SBET of CV-char at 600 °C is 7.0 cm2 g-1, while that of MW-char is 3.5 cm2 g-1. The combustion performance of MW-char is inferior to that of CV-char.