Introduction: Although cranioplasty is considered to be a frequent and straightforward procedure, studies have shown complication rate up to 34%. While cranioplasty with autogenous bone is still regarded as the gold standard to restore cranial vault integrity, there is currently no consensus for the optimal material in the management of cranial defects. Emerging manufacturing technologies and the development of new materials offer an wide range of solutions, yet one can assume that material is chosen in regard of price, lead time, reimbursement policy and medical institutions’ preferences, but rarely according to the initial indication and the expected outcomes for such procedure, which prevent patient-specific devices from achieving large-scale utilization despite their demonstrated superiority over off-the-shelf solutions. It is therefore necessary to promote new approaches, via the development of innovative ICT tools, integrating clinical support during the pre-surgical planning, translating clinical history, treatment plan and follow-up strategy into the design of patient-specific cranial implants to achieve better clinical outcome. Methods: To transform this paradigm nowadays established in cranioplasty surgery, the first open access 3D virtual model-based ICT tools for surgeon-manufacturer communication and pre-surgical planning, serving as patient-specific implant configurator in regard of patient and pathology specificities, has been developed for the management of complex clinical cases. Results: This tool successfully grants the surgeons, via the manipulation of 3D models, the ability to describe in a more natural way, the individual solutions to realize for the treatment of a particular patient. Additionally, the surgeon’s participation in the co-creation and approval processes of the solution is being facilitated by the specification of requirements on virtual models and the systematization of the design features. Along with it, the accumulated experience of the use of patient-specific implants (PSI) is used as a clinical decision support and as a learning tool to create added value not only for patients, but for surgeons and medical institutions as well. Conclusion: This newly developed 3D virtual model-based technology, set as surgeon-manufacturer communication for PSI order and configurator, ensures correct data interpretation, product safety and functionality while taking into account the specificity of one patient for whom the device is prescribed. Those will accelerate the shift of the surgical thought paradigm towards personalized approach and undoubtedly will help achieve better clinical outcome, shorten delivery time and drop the costs of the implants used to manage rare and complex clinical cases.