Soil, ground water, and sea bed are exposed to a continuous accumulation of polluted materials, causing serious environmental damage. It has been reported that such pollution causes a massive mortality of fish stock in rivers due to the resuspension of toxic chemicals, occurring during strong wind conditions. Therefore, it becomes apparent that there is an immediate demand for the restoration treatment of polluted river bed (or sea bed) sediment layers. Pollution levels of major rivers and ports, such as Paldang, Kyungan rivers, and Masan port, are becoming of great public concern, and are posing a serious environmental threat. In particular, the pollution of the Shi-hwa river has become a nation wide issue for the last few years. In spite of such public concern, the pollution levels of such rivers or ports are worsening everyday. In this study, an environmentally sound engineering package is introduced that helps to restore the polluted river bed or sea bed sediments. This engineering package consists of a suction facility, followed by a series of mechanical, chemical, and biological treatment units. The suction facility is designed to minimize secondary pollution that occurs from the resuspension of toxic materials during suction. The sea bed cleaning engineering package is designed to be installed on the top of a floating barge. Such a combination of environmental plant and shipbuilding technology provides a cost-effective solution, minimizing the transportation between suction and treatment facilities.