MBP has created a unique seawater filtration system for oyster cultivation. MBP oysters are grown in 1-µm filtered seawater to avoid contamination from harmful microorganisms and parasites, such as Haplosporidian costale (SSO). Seawater is first pumped from Yaquina Bay at high tide and stored in a 3 million liter reservoir. Seawater is then pumped from the reservoir through two large sand filters (filtering down to approximately 10 µm) and on to a series of bag filters (filtering down to 1 µm).

In 2007 MBP added additional filtration to remove naturally occurring Vibrio bacteria and associated toxins from the incoming seawater. This is accomplished by passing the 1 µm filtered seawater through a UV filter into a storage raceway. Once in the raceway, water is cycled through a protein skimmer and biological filter at a rate of approximately 6 raceway volumes per day. Seawater then pumped from the storage raceway directly to larval culture tanks or, after an additional UV filtration, to spat culture tanks.