Business process outcome prediction plays an essential role in business process monitoring. It continuously analyzes completed process events to predict the executing cases’ outcome. Most of the current outcome prediction focuses only on the activity information in historical logs and less on the embedded and implicit knowledge that has not been explicitly represented. To address these issues, this paper proposes a Deep Latent Factor Model Predictor (DLFM Predictor) for uncovering the implicit factors affecting system operation and predicting the final results of continuous operation cases based on log behavior characteristics and resource information. First, the event logs are analyzed from the control flow and resource perspectives to construct composite data. Then, the stack autoencoder model is trained to extract the data’s main feature components for improving the training data’s reliability. Next, we capture the implicit factors at the control and data flow levels among events and construct a deep implicit factor model to optimize the parameter settings. After that, an expansive prefix sequence construction method is proposed to realize the outcome prediction of online event streams. Finally, the proposed algorithm is implemented based on the mainstream framework of neural networks and evaluated by real logs. The results show that the algorithm performs well under several evaluation metrics.