It just dawned on me that I didn't answer the question, so I'll fix that now. Although I said Naota (FLCL) before I'd like to change my decision to Kyon. Other arguments won me over and I agree.
If someone knows RAI from noblesse (manga) which is my avi, i'll cast my respect upon him.
I liked LELOUCH LAMPEROUGE from code geass. Who can deny his charm, power and wit?
His personality is not likeable, but his intelligence solves it all.
Next is KAKASHI HATAKE from naruto. Everyone wants a bestfriend who is super cool.
I really liked Lelouch as well, but that might be a bit clichéd. Some of my favorite characters include Nate Rivers from death note, Tsukune from Rosario+Vampire, Dominique from Eureka Seven and Keima the God of Conquest.
Special mention for most "Gin" characters, like in bleach and R+V. You know the ones, a bit cocky, or rather, confident, with squity eyes and a penchant for hiding something.
But I will always remember Sousuke Sagara because of the scene in fumoffu where he battled those karate guys xD. That scene made my laugh so hard I started to cry haha.
Allen Walker from D. Gray Man. He really cares for his comrades and even loves the demons in the story. He's SUPER cool with his power Crown Clown and looks like a badass :)
Alucard from Hellsing, though he has apparently unending reserves of power he still likes to keep it real by limiting himself. Bad-ass whether voiced by Jouji Nakata or Crispin Freeman.