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There are several checks that be done.If it's the 300gpd system take the outlet pipe of each filter one at a time and measure the time it takes to get 100ml of product water. From this you can tell if one of the filters is defunct.Also because you mention the amount of waste water has shot up I'b be tempted to remove the tap that controls the flush and clean it out or replace, because it sounds like something in there is allowing water past which it shouldn't if in the 'closed' position.personally I would start with checking that flush tap.