Mr. Rick Seaney may be a leading national expert on airfare, but he evidently doesn't know jack about how the aviation system in general and 121 airlines specifically operate.
People that fly on business aircraft pay through the nose compared to flying the airlines for one reason - SAVE TIME. If you value your time (or the "green-ness" of your ticket) then pay the premium for a nonstop or enjoy your cheap ticket and ****.