Effective waste management poses a significant challenge for transitional countries, particularly in the context of limited financial and material resources. In Bosnia and Herzegovina (BiH), the inefficiency of the waste management system at both the entity and national levels exacerbates the difficulty of establishing an integrated system resilient to natural and other hazards. This study introduces a theoretical model of comprehensive waste management (CWM) tailored for crisis situations, aiming to advance the development of a unified system across BiH. Key measures proposed include the involvement of key stakeholders, optimization of material resources, and continuous education to address irresponsible waste disposal practices and non-compliance with regulations. These issues contribute to the proliferation of illegal landfills and heighten the risk of large-scale environmental catastrophes. Specifically, in the Republic of Srpska, one of BiH's two entities, 400,000 tons of municipal waste were generated in 2020, averaging 0.95 kg per person per day, with approximately 40% being organic waste and another 40% packaging waste. Regrettably, only about 5% of this waste is recycled, largely due to an inadequate strategy and systemic approach to waste management, with about 30% of the population still lacking access to waste collection services. The proposed CWM model and the associated measures are crucial for mitigating the impacts of natural hazards, such as floods, on waste management systems.