I agree with Mike - there's no "wrong" way to do anything, unless that way is unsafe. Commercial jig makers are, of course, in the business of selling jigs. Each tries to differentiate themselves within the market by some means. Some sell the idea of simplicity, Incra concentrates on flexibility and micrometer-style adjustability. The choice, I think, depends on how a particular jig fits with one's own style of working, and what the objectives are in terms of both production and joint style.
For my way of working, for example, the traditional style of box/dovetail jigs made by Leigh and Porter Cable make more sense. But, there are many who like the Incra system. And, there are still others who prefer Oak Park or other manufacturers. It's a personal decision, really.