Transparent exopolymer particles (TEP), natural organic matter, and bacterial concentrations in feedwater are important factors that can lead to membrane biofouling in seawater reverse osmosis (SWRO) systems. Two methods for controlling these concentrations in the feedwater prior to pretreatment have been suggested; use of subsurface intake systems or placement of the intake at a greater depth in the sea. These proposed solutions were tested at two SWRO facilities located along the Red Sea of Saudi Arabia. A shallow well intake system was very effective in reducing the algae and bacterial concentrations and somewhat effective in reducing TEP concentrations. An intake placed at a depth of 9 m below the surface was found to have limited impact on improving water quality compared to a surface intake. The algae and bacteria concentration in the feedwater (deep) was lower compared to the surface seawater, but the overall TEP concentration was higher. Bacteria and TEP measurements made in the pretreatment process train in the plant and after the cartridge filters suggest that regrowth of bacteria is occurring within the cartridge filters. (C) 2015 Elsevier B.V. All rights reserved.