Church buildings constructed before 1978, including those from the Baroque period or later remodeled in the Baroque style, are subject to mandatory seismic assessment under Law 212/2022. However, the limited availability of time and qualified experts can result in superficial evaluations or interventions that risk compromising heritage values. To address this, comparative analyses and simplified structural models in first assessment phases are recommended to identify sensitive features specific to Baroque churches. These buildings typically display thick masonry walls, often decorated with mural paintings or stuccoes, double-curvature vaults prone to cracking near the keystone or vault quarters, and timber roof structures designed according to Baroque principles. Roofs commonly include primary trusses with tie beams and secondary trusses without them, using various wood species according to their structural roles. Structural engineers must balance technical requirements with cultural sensitivity, respecting not only the function of load-bearing elements but also their historical message and the traditional construction technologies they embody. In the same spirit, engineers should account for the integrity of mural artworks, just as architects and historians should recognize the aesthetic and mechanical significance of historical structural solutions. This paper presents methodology for structural evaluation and heritage value assessment, applicable to historical church restorations. The proposed approach integrates vault and roof analysis, dendrochronology, inspection of traditional tool marks, and fire performance testing. The principles are illustrated through the case study of the Roman Catholic Cathedral in Timișoara, recently restored with European Union funding. The restoration highlights the importance of applying European quality standards while demonstrating a context-sensitive approach to structural conservation.