This research paper introduces virtual commissioning as a pioneering methodology poised to revolutionize logistics solutions. Through advanced technologies like simulation and digital twin models, virtual commissioning offers a real-time representation of logistics systems, enabling emulation and testing within a virtual environment. By minimizing the reliance on physical prototypes and in-field testing, this approach enhances sustainability, adaptability, and overall performance within the logistics industry. The study goes into various branches of logistics and supply chain optimization, showcasing the applicability of virtual commissioning in each domain. It highlights significant benefits and cost-savings that can be achieved by organizations that have embraced this methodology. Through literature analysis, this paper is showing and focusing on the transformative potential of virtual commissioning, positioning it as one of the key aspects for future logistics innovation. Moreover, one of the tasks of this paper is to address gaps in existing literature and scientific research by offering a specific methodology that simplifies processes for end-users and provides clarity for scientific publications by addressing previously undescribed aspects of this issue.