AbstractIn the complex, critical, and rapidly evolving era of Industry 4.0 manufacturing, mature engineering disciplines can be developed to validate system designs at an abstract level, enabling effective fault‐free environments. However, designing integrated IoT platforms presents significant challenges due to their inherent complexity and interoperability issues. To address this challenge, the proposed framework integrates axiomatic design principles with considerations for data integrity and domain ontology. Furthermore, this paper introduces a multi‐level integrity rule repository for IoT application to provides a robust foundation for designing and maintaining IoT systems. To validate the effectiveness of this approach, we conducted a study across four domains of smart cities. The design's quality was assessed using model quality parameters, including completeness, consistency and validity. Our analysis shows that the semantic‐aware axiomatic design framework can effectively address the problem of inconsistencies and low‐quality design in scientific IoT environments, providing a more reliable and efficient solution.