If they DIDN'T move FA Skyla into this set, you'd all be whining that this set is even worse than you're all already whining it is. You're going to have to deal with the "fluff" sooner or later. It may as well be now.
And did it ever occur to you that maybe they're shuffling around some of the trainers to AVOID having another CoL coming barreling down the pipeline later on? From a money making standpoint, X mediocre sets is better than X-1 ok sets and one set that nobody ever buys because there's nothing at all in it.
You thought CoL was bad as it is? What if they had given us the Lost Link cards all together in Triumphant, and not "mess[ed] up a set that didn't need any tampering" then? NOBODY would have bought ANY CoL WHATSOEVER. Moving around cards in order to make every set at least somewhat desirable, no matter how barely, is more important than having a set that everybody refuses to buy every few years.