Rolling Stone has been weak for years. If you can ever get your hands on an issue from the 60's-70's check it out and compare it to the magazines they put out nowadays. I have a few from 1967 and they are such good reads, so real and actually down with what was dope, not just what people wanted to hear.
It's obvious they would pick Dylan for the top stop regardless of his album being great or a flop, although it was great. TV On The Radio actually had a new sick album too, but I mean they are missing shit like Atmosphere's "When Life Gives You Lemons... You Paint That Shit Gold!".
The thing that killed me about Rolling Stone is when they made the top 100 Greatest Artists of All Time (The Immortals) is that they listed so much whack shit and among the top 100 GREATEST BANDS OF ALL TIME they didn't bother to list Pink Floyd who holds Billboard records and is easily one of the most influential and recognized bands in history.
Here's a quick easy to read version of their list.
http://www.rockonthenet.com/archive/2004/immortals.htm