Purpose: To develop guidelines for the management of transport operations at port freight stations, based on intelligent algorithms and the application of axiomatic design to technological processes, as well as the processing of arrays of time parameter data. Methods: Following a thorough analysis of the scientific papers relevant to these studies, intelligent algorithms and the author’s models of digital axiomats of transport processes at port stations were utilised in the selection of local operation options. Results: The article sets out principles for creating algorithms to manage transport operations at port freight stations. These principles are based on the author’s axiomatics of technological processes and selection of effective solutions for resolving transport conflicts in the context of multiple service options. The article also discusses the evaluation and selection of rational options using intelligent methods. A study was conducted into the potential for adapting intelligent control algorithms to transport operations at port freight stations, with a view to selecting effective technological parameters for local operations. Practical significance: The author presents their approach to creating control algorithm flowcharts using the example of a station’s transport and technological scheme. This takes into account various service options, potential transport conflicts, and time delays.