Why wouldn't you include fighters from other orgs? There are other ones besides the UFC and the UFC doesn't have all the best fighters. Plus those are WORLD rankings so they need to look at all fighters in the world. MMAweekly has pretty good rankings. There might be a couple guys you could shuffle around but for the most part their rankings are solid.
Yet again you completely missed the point. You indeed have to include them from all organizations, which makes the ranking difficult. I find several UFC fighters ranked wrongly already, with non UFC fighters making their mess even uglier.
I detect alot of bias towards DREAM too, take a look at lightweight ladder for example: They do not include Floarian, Griffin and Huerta at all there, yet a guy like Josh Thomson is ranked 10th there. Thomson lost vs. Clay Guida, who has lost vs. both Huerta and Griffin.
Gomi's ranking I could personally agree with based on his Pride accomplishments (while ignoring the fact that he has had only 1 fight since Pride), but then again he also got choked out by Aurelio who lost vs. Griffin too, so hard to rank him that high either in a way even though he did beat Aurelia on rematch by split decision.
Also they got Shinya Aoki ranked above Hellboy even though Hellboy is the freakin champ with a recent win over him.
I could go on an on about these...
My point was though that I don't mind them trying to make such ladders, but including silly hyping how #X fighter of <insert weight division here> is fighting <insert opponent here> on their card analyzes is pretty stupid. No way one could rank 10 different guys from different organizations that got no fights against each other too accurately, so why try to use such ladders to build more hype about the cards? That card sells itself already without dumb ladder hype anyway.