In order to explore the improvement effect of fungal fertilizer and desulfurization gypsum combined application on saline-alkali soil，field experiments were carried out in the irrigation area on the south bank of the Yellow River in Inner Mongolia. The effects of blank control (CK)，7∶3 ratio of photosynthetic bacteria and chlorella，22.5 t/hm² of desulfurization gypsum(FM1)， 3∶7 ratio of photosynthetic bacteria and chlorella，22.5 t/hm² of desulfurization gypsum(FM2) and desulfurization gypsum 22.5 t/hm² (F) on soil water，salt，fertility and yield of pacesetter during the growth period were investigated. The results showed that，compared with CK，the treatment with amendment significantly reduced the soil salt content and increased the soil organic matter and available nutrients. Compared with CK，FM2 treatment reduced the salt content of 0-40 cm soil by 20.58%. The contents of organic matter，available nitrogen，available phosphorus and available potassium increased by 19.22%，25.60%，27.20% and 19.26%，respectively. The yield of pacesetter increased with the increase of the proportion of chlorella in the mixture，and FM2 treatment increased by 21.05% compared with CK treatment. The soil mass index of FM2 treatment had the best improvement effect，indicating that the combined application of photosynthetic bacteria and chlorella microbial fertilizer mixed with desulfurization gypsum in a ratio of 3∶7 could reduce the saline-alkali barrier，increase soil fertility，and promote plant growth，so as to achieve the purpose of increasing yield.