Supply chains have evolved into complex, multi-layered models that involve a variety of global stakeholders and participants and operate from geographically dispersed locations. Therefore, it is important to apply the most sufficient management methods and tools to support both the effective selection of appropriate solutions and the configuration of global supply chains (GSCs). The literature review revealed the potential of combining traditional GSCs management methods with an iterative approach. The empirical part, related to the analysis of efficiency ratios between iteration results, was carried out using actual data from a liquids-based supply chain. The research focused on identifying changes in the transport efficiency of liquid material flows. Five to-be iterations and one as-is iteration were proposed for model calibration. It was validated that a change in planning method of delivery points along routes and consolidation of deliveries can affect supply chain efficiency. Changing the functionality of process participants and the regionalisation of delivery areas was also found to improve transport efficiency by up to 22.37%, depending on the other parameters changed in each of the different iterations. The study was based on anonymised historical data from a liquid-oriented transport company. The analysis was carried out using ArcGIS tool with the Network Analyst add-on. The result of the research provides valuable conclusions that lead to the recommendations that may be used when planning a GSCs design. Based on the detailed calculations, the most sufficient control parameters can be pointed out for an implementation within existing supply chains in order to obtain a more sustainable logistic model.