The rapid development of agriculture has led to a large amount of wastewater, which poses a great threat to environmental safety. Microalgae, with diverse species, nutritional modes and cellular status, can adapt well in agricultural wastewater and absorb nutrients and remove pollutants effectively. Besides, after treatment of agricultural wastewater, the accumulated biomass of microalgae has broad applications, such as fertilizer and animal feed. This paper reviewed the current progresses and further perspectives of microalgae-based agricultural wastewater treatment. The characteristics of agricultural wastewater have been firstly introduced; Then the microalgal strains, cultivation modes, cellular status, contaminant metabolism, cultivation systems and biomass applications of microalgae for wastewater treatment have been summarized; At last, the bottlenecks in the development of the microalgae treatment methods, as well as recommendations for optimizing the adaptability of microalgae to wastewater in terms of wastewater pretreatment, microalgae breeding, and microalgae-bacterial symbiosis systems were discussed. This review would provide references for the future developments of microalgae-based agricultural wastewater treatment.