Lacustrine sedimentary soft soil distributes widely in Kunming area, and its engineering properties are extremely special. In this site, the risk of shield construction is very high, which is easy to cause instability of the shield end and the disaster of water and sand gushing. Therefore, it has become an urgent problem to explore the key control measures for the construction of the shield end in soft soil sites. An empirical analysis method is used to analyze the end reinforcement process, and the orthogonal test is introduced to explore the reinforcement range, so as to obtain an applicable optimal calculation model. Therefore, the application suggestions of each process, the ranking of sensitivity of end stability and the theoretical solution of reinforcement range are given. In view of the great risk of water and sand gushing in the existing portal water sealing and stop system, a new permanent water sealing and stop system is proposed in this paper. This system consists of three sealing components and two active measures. The research conclusion and water stop system are applied to the end of Huibao section of Kunming Metro Line 5. Midas Gts and logarithmic spiral sliding calculation model areused to simulate and calculate the stability of the end soil. Calculated displacement contour and safety factors are consistent with the field measurement, achieving a unification of end reinforcement theoretical solution and engineering solution. From the construction site, the application effect of the new water stop system is very ideal, which effectively ensures the safety of shield entering and leaving the tunnel, and can provide a reference for the design and construction of similar shield projects.