Halogenation reaction is one of the key reactions in organic synthesis, which acts pivotal part both in laboratory study and industrial applications. Traditional halogenation reactions rely on the use of toxic and hazardous reagents with low selectivity. The enzymatic catalysis bears enormous possibilities to overcome abovementioned bottlenecks remaining in traditional halogenation reactions. Nature has evolved a variety of halogenases that are capable of catalyzing the introduction of halogen atoms in organic substrates. The particular advantage of enzymatic catalysis is that it enables the efficient halogenation reactions occurring at common temperature and pressure with the use of mild halogen sources. The enabled challenging reactions range from halogenation, halohydroxylation, halocyclization to oxidative decarboxylation. In view of the significant potential of enzymatic catalysis in halogenation reactions, the recent advances of halogenase-catalyzed green synthesis are introduced from the perspective of catalytic activity, enzyme stability, substrate concentration, catalytic scope and so on. It is hoped to raise further inspirations in the development of green halogenation reactions catalyzed by halogenases.