I think you have to admit that the allegations in the article are overblown. The one solid point it does make, however, is with respect to the case study that is Texas A&M this year.
A&M started out barely in the top 25 and basically took South Carolina's spot around number 6 after trouncing them to open the season. In a situation like that at the beginning of the season you have to think it was either because SC was overrated or because A&M was underrated. Well it seems like the voters didn't even think about the former scenario (which has actually proven to be the case). Subsequently, every SEC West team that beat A&M basically got credit for slaying a juggernaut and jumped in the polls as a result (note, by the way, that each of the SEC West teams that beat A&M are now in the Top 10). Heck, despite Kentucky giving Miss. St. a better game than A&M, all you hear is about the strength of the teams that beat A&M, not about how weak A&M is.
Although the SEC West does get the benefit of never having to hear the word "overrated" for really any of its teams, a lot of this "bias" does come down to scheduling. The Big 12 (and other conferences) should get with the times and put their crap OOC games later in the season.
And neither Texas A&M nor South Carolina are ranked right now. Amazing, isn't it? The more data you get, the better the rankings are! Oklahoma State was in the top 15 at one point this season, mainly on the strength of playing Florida State close. Is that Big 12 bias at work? Or once OKSt lost a few games and we saw NC State, Louisville, Clemson, and Notre Dame also play Florida State down to the wire were people just able to make better judgments about the strength of Oklahoma State?