The synergy of computational logistics and deep learning provides a new methodology and solution to the operational decisions of container terminal handling systems (CTHS) at the strategic, tactical, and executive levels. Above all, the container terminal logistics tactical operational complexity is discussed by computational logistics, and the liner handling volume (LHV) has important influences on a series of terminal scheduling decision problems. Subsequently, a feature-extraction-based lightweight convolutional and recurrent neural network adaptive computing model (FEB-LCR-ACM) is presented initially to predict the LHV by the fusion of multiple deep learning algorithms and mechanisms, especially for the specific feature extraction package of tsfresh. Consequently, the container-terminal-oriented logistics service scheduling decision support design paradigm is put forward tentatively by FEB-LCR-ACM. Finally, a typical large-scale container terminal of China is chosen to implement, execute, and evaluate the FEB-LCR-ACM based on the terminal running log around the indicator of LHV. In the case of severe vibration of LHV between 2 twenty-foot equivalent units (TEUs) and 4215 TEUs, while forecasting the LHV of 300 liners by the log of five years, the forecasting error within 100 TEUs almost accounts for 80%. When predicting the operation of 350 ships by the log of six years, the forecasting deviation within 100 TEUs reaches up to nearly 90%. The abovementioned two deep learning experimental performances with FEB-LCR-ACM are so far ahead of the forecasting results by the classical machine learning algorithm that is similar to Gaussian support vector machine. Consequently, the FEB-LCR-ACM achieves sufficiently good performance for the LHV prediction with a lightweight deep learning architecture based on the typical small datasets, and then it is supposed to overcome the operational nonlinearity, dynamics, coupling, and complexity of CTHS partially.