People are already up in arms about an Iowa State team getting a bye as the 4 seed in hypothetical brackets and we’re not even in October of the new system’s first year..What's coming next (and very quickly, I'd guess) is the elimination of the bye for conference champs. The moment a Big 12 team is seeded higher than Bama/UGA/Texas/Tennessee/Ohio State/Penn State/etc the media folk will be up in arms about it.
Conference champion autobids, as a whole, will likely last a while as that's a fairly easy way to stop G5 conferences from suing over the whole thing.