Organic manure application is a typical measure of circular agriculture, which can ensure food healthy and improve soil sustainable utilization. The vegetable greenhouse at Quzhou research station was selected to study the effects of organic manure on the stability of soil aggregates, three different treatments were designed, i.e., organic manure application, chemical fertilizer mixed with organic manure, chemical fertilizer application. The results after 6a showed that soil organic carbon content of organic manure application was 107.02% and 171.71% respectively higher than chemical fertilizer mixed with organic manure and chemical fertilizer; the mean weight diameter r (MWD) and geometric mean diameter (GMD) of water-unstable aggregates of organic manure application were 65.68%, 4.18% and 16.80%, 8.26% respectively higher than chemical fertilizer mixed with organic manure and chemical fertilizer in dry sieving; the MWD and GMD of water-stable aggregates of organic manure application were 41.12%, 34.78% and 77.78%, 63.16% respectively higher than chemical fertilizer mixed with organic manure and chemical fertilizer in wet sieving; organic manure application increased soil disperse coefficient at 0-20cm soil layer, but reduced soil disperse coefficient at 20-40cm soil layer. Organic manure application can increase soil organic carbon content, water-instable aggregate and water-stable aggregate, and the microaggregate content below the tillage layer, thus it is the effective measure to improve soil structure.