In this paper, we conduct an in-depth research on the corresponding enterprises, combined with some problems existing in the process of data processing and use. We establish a deep learning model on the extensive collection and comprehensive investigation of the research results of domestic and foreign enterprises in all aspects of the process of data processing and use, and determine the research directions. Firstly, in view of the increasing complexity and dimension of enterprise data, and the difficulties of enterprise data application, this paper studies the related data preprocessing methods. Secondly, aiming at the problems of enterprise cost control and customer relationship management, this paper studies the prediction based on enterprise data through the analysis of practical problems and the processing of corresponding data. Finally, in order to progress and advance the efficiency and scientific usefulness of enterprise management, we in this paper study the evaluation based on enterprise data. The model is verified through simulations and compared with several models i.e. cross hybrid and sequential hybrid models. Using certain assumptions, the attained outcomes confirm that the accuracy of the deep learning structure of the single model is sophisticated and greater than that of the cross hybrid model, but lower than that of the sequential hybrid model.