Series books where the killer is MC and is manhunted?

The Dexter series by Jeff Lindsay springs to mind.

Well... my series features a mostly retired mob hitman on the run from the police. He is really a good guy, but he was convicted of killing a police officer and has escaped from prison a few times. The first book, Lead Poisoning, shows him trying to settle down in rural New Hampshire and getting into trouble, because that's what he does best. The second book, Stress Fractures, is more of a classic fugitive scenario, with him freshly escaped from prison in upstate New York, and scenes of the Deputy United States Marshal chasing him. He gets into trouble in that one too. I've had trouble getting agents interested in this series because I've had difficulty making my MC likeable enough.

Such stories are pretty common in noir. There have been at least three long series where the cops were after the MC because he was killing people in the mob, or drug dealers, etc.

Lawrence Block's "Hitman" novels. Dan J. Marlowe's "Drake" series. Most of Thomas Perry's "Jane Whitefield" books.

Andrew Vachss' "Burke" and F. Paul Wilson's "Repairman Jack" series are urban, but you might find them useful.

If you look into the Western genre, it's very common.

If you're looking at pulp noir, Charlie Huston's "Hank Thompson" trilogy is killer.

John Locke's Donovan Creed series.
Amsterdam Assassin from Martyn V. Halm.

-cb

Probably an obvious one, but Patricia Highsmith's "Ripley" books are great, albeit not modern.

Belgian series "XIII" features a manhunted killer in search of his past. ( http://en.wikipedia.org/wiki/XIII_(comics) )

-cb

Although not the actual killer of his wife, The Fugitive comes to mind. He's being hunted by law enforcement and there is definitely complexity in the story.