Due to population growth and human activities, water shortages have become an increasingly serious concern in the North China Plain, which has become the world’s largest underground water funnel. Because the yield per unit area, planting area of crops, and effective precipitation in the region are uncertain, it is not easy to plan the amount of irrigation water for crops. In order to improve the applicability of the uncertainty programming model, a hybrid LSTM-CPP-FPP-IPP model (long short-term memory, chance-constrained programming, fuzzy possibility programming, interval parameter programming) was developed to plan the irrigation water allocation of irrigation system under uncertainty. The LSTM (long short-term memory) model was used to predict crop yield per unit area, and CPP-FPP-IPP programming (chance-constrained programming, fuzzy possibility programming, interval parameter programming) was used to plan the crop area and the effective precipitation under uncertainty. The hybrid model was used for the crop production profit of winter wheat and summer corn in five cities in the North China Plain. The average absolute error between the model prediction value and the actual value of the yield per unit area of winter wheat and summer maize in four cities in 2020 was controlled within the range of 14.02 to 696.66 kg/hectare. It shows that the model can more accurately predict the yield per unit area of crops. The planning model for the benefit of irrigation water allocation generated three scenarios of rainfall level and four planting intentions, and compared the planned scenarios with the actual production benefits of the two crops in 2020. In a dry year, the possibility of planting areas for winter wheat and summer corn is optimized. Compared with the traditional deterministic planning method, the model takes into account the uncertain parameters, which helps decision makers seek better solutions under uncertain conditions.