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The case with many of these guys is that the best players around really goes very deep. It's a matter of opinion who does and doesn't belong, but I will try to justify the reasons why these ones didn't make it.
Marshawn Lynch: He can't really catch very well, and he lacks consistency. It seemed like half of his games this year were for 130-140 yards, and the others were 50 or so.
Darren McFadden: Injuries are ruining his career. When he's healthy, he is arguably one of the top three or four backs in the NFL, but I just can't trust his health, thus why he isn't on the main list.
DeAngelo Williams and Jonathan Stewart: If they didn't have to share the ball with each other, they'd both have 1,000-yard seasons. However, they do need to share, so neither one gets to be leading man.
Reggie Bush: He had a very good season, but just like others, one healthy season isn't everything. I believe that if he gets another full season and performs as well as he did this year, he will be arguable for the top 10.
Ryan Mathews: Had a very good and very underrated year. So far, he's starting to prove that first-round draft pick was worth it.
Beanie Wells: Same goes for Wells. He actually had a rather dominant year, but playing for the atrocious Cardinals held him back from getting attention. But just like Bush and McFadden, he hasn't been consistently healthy. One more season and he will be arguable.
Shonn Greene: Had a good season, but he just missed the cut.
Willis McGahee: Same thing here. Had a very good, redeeming sort of season. However, I just feel that the other backs that wound up being listed were better.
Rashard Mendenhall: Had a down year after two good ones and missed 1.75 games due to injuries, preventing him from having his third consecutive 1,000-yard season with 10 touchdowns. He should improve with time, as he probably has the best footwork, quickness and acceleration of any running back his size in the NFL.
Steven Jackson: This is the one that will bug people the most. The problem is he has battled injuries for a while now, and the Rams are starting to throw it more. He's also not getting any younger and the sheer volume of carries he undertook during his younger days is starting to catch up with him.