At transonic velocity, ejector nozzles require third auxiliary intake valves to increase air intake, resulting in good thrust performance. However, different intake structures will inevitably lead to different internal flow-field structures and thrust performances. To evaluate the differences between nozzles with full-open valve and open-close valve at transonic velocity, we established two numerical simulation models to analyze the flow-field structure and thrust performance in the ejector nozzle. The results show that at the transonic flight state (
Ma
=
1.2
), the mainstream of the two models always maintains an overexpansion state, and the primary flow fields are highly similar. However, the secondary and the third auxiliary flow fields are significantly different. Notably, in the nozzle with open-close valve, a lateral flow occurs near the wall of the nozzle tail, resulting in several vortexes. Contrarily, in the nozzle with full-open valve, there is almost no lateral flow or vortex. Further, we found that the secondary flow tends to roll up toward the third auxiliary valve instead of directly flowing into the nozzle. Thus, the thrust coefficients of the two nozzles differ.