Lots of experience in beverage here. Typically, the processing, filling / capping, and further packaging (into cases and palletization) are conducted in separate rooms. Therefore, minimum of 3 separate areas. Now, depending on design of facility this may not be possible, you have to assess the hazards and risks.
Typically, highest risk is in the filling / capping process step so you will want to isolate this as much as possible. You don't want to be bringing in any forklifts, wood pallets, corrugate as they can all prove to be contaminants or vectors with environmental. Have strict personnel GMP's, traffic control, and sanitation controls in this area.