A zoned fluid control system in a valve manifold system has a plurality of manifold blocks connected together and a plurality of control valves mounted to the manifold blocks with the control valves being electrically actuated and pilot pressure operated. The plurality of manifold blocks forms at least first and second separate pilot pressure passages of a respective first zone and second zone not connected to each other for supplying a respective first set and second set of control valves with independently controlled pilot pressure. A pilot supply valve selectively supplies pilot pressure and shuts off pilot pressure to the second pilot pressure passage without affecting the pilot pressure to the first pilot pressure passage thereby disabling the second set of control valves as a separate zone independent from the first set of control valves.