Using seawater in cooling systems is a common practice in many parts of the world where there is a shortage of freshwater. However, biofouling is one of the major operational problems associated with the usage of seawater in cooling systems. Microfouling is caused by the activities of microorganisms, such as bacteria and algae, producing a very thin layer that sticks to the inside surface of the tubes in heat exchangers. This thin layer has a tremendously negative impact on heat transferred across the heat exchanger tubes in the system. In some instances, even a 250 micrometer thickness of fouling film can reduce the heat exchanger's heat transfer coefficient by 50 percent. On the other hand, macrofouling is the blockage caused by relatively large marine organisms, such as oysters, mussels, clams, and barnacles. A biocide is typically added to eliminate, or at least reduce, biofouling. Typically, microfouling can be controlled by intermittent dosages, and macrofouling can be controlled by continuous dosages of biocide. The aim of this research work is to develop a systematic approach to the optimal operating and design alternatives for integrated seawater cooling systems in industrial facilities. A process integration framework is used to provide a holistic approach to optimizing the design and operation of the seawater cooling system, along with the dosage and discharge systems. Optimization formulations are employed to systematize the decision-making and to reconcile the various economic, technical, and environmental aspects of the problem. Building blocks of the approach include the biocide water chemistry and kinetics, process cooling requirements, dosage scenarios and dynamic profiles, biofilm growth, seawater discharge, and environmental regulations. Seawater chemistry is studied with emphasis on the usage of biocide for seawater cooling. A multi-period optimization formulation is developed and solved to determine: * The optimal levels of dosing and dechlorination chemicals * The timing of maintenance to clean the heat-exchange * The dynamic dependence of the biofilm growth on the applied doses, the seawater-biocide chemistry, the process conditions, and seawater characteristics for each time period. The technical, economic, and environmental considerations of the system are accounted for and discussed through case studies.