Abstract Flooding is the most devastating natural hazard in Pakistan and the recent flooding has demonstrated its severeness. Floods are common throughout the country. However, their characteristics differ from region to region. Flooding behavior of the major basins and flood management at the national level are investigated in this article. Monsoon rainfalls are the main source of floods in the Indus Basin, while Mediterranean Waves and Cyclones, which are generated over the Arabian Sea, induce flooding in the Kharan Basin and the Makran Coastal Area. Fluvial floods in the Indus Basin have caused major economic losses. Pakistan’s government has spent vast resources on relief operations and flood works since the country came into existence in 1947. A number of provincial and federal acts, ordinances, accords, and treaties shape the national flood policy. Institutional setup for flood hazard and crisis management has evolved over the years. Nevertheless, data show no major reduction in the flood-to-damage ratio. The inter-linkage of structural and non-structural measures and their combined efficiency must be analyzed and optimized for more effective flood management.