I would never argue that a team from the WAC should be playing in a BCS bowl game unless it filled its non-conference schedule with ranked BCS teams and beat them.
That's a different argument, though.
We're talking about June Jones' coaching job. Hawaii's program did not have more resources or a greater ability to attract talented recruits than the other members of the WAC. It wasn't like TCU being based in Dallas. It was a heck of a coaching job to go undefeated there.
Going from 0-12 to 9-3 in year 1 is more impressive than anything else he did there.