Regarding topological interpretation of space, this research aims to identify urban morphologies, whose topology becomes increasingly determining under high uncertainty. This topological approach has been applied in an evolutionary analysis of urban spaces under siege, fear and conflict, which conducted to the construction of a specific method. This method analyses the transformation of urban areas in five consecutive phases: urban form [1], increase of uncertainty [2], application of the apparatus [3], change in urban form [4], information flows [5]. These five phases were applied to different empirical studies, analysed through specific morphological and topological models. In the light of this method, two selected urban morphologies Dobrinja –a suburb in Sarajevo– and the Beirut Central District have been examined. The urban morphology of both areas was dramatically transformed after both civil conflicts –the Bosnian War and the Lebanese Civil War–. Dobrinja suffered severe modifications, first provoked by the violence of the siege during the Bosnian War [1992-1995], and then by the Inter-Entity Boundary Line as a result of the Dayton Peace Agreement [December 1995], which divided the neighbourhood and caused serious alterations in its ethno-demographic and spatial structure. The Beirut Central District was first destroyed by the violence experienced in the Lebanese Civil War [1975-1990] and then by the process of subsequent reconstruction [since 1992], which led to a simplification of its structure. The two morphological and topological analyses enable us to determine the initial causes and their spatial consequences in both urban areas, regarding their conflict and post-conflict stage.