I just found this video (the one below) which tries to elaborate a “ranking” of the cities vision developed through graphic novels and comics. Obviously a lot of others could have been quoted here but the final list is already pretty good…
(starting from above)
– Moebius & Jodorowsky: L’Incal
– Various authors: Gotham City (Batman)
– Eddie Campbell: London (From Hell)
– Chris Ware: Chicago (Jimmy Corrigan: the smartest kid on Earth)
Pat Mills, John Wagner and Carlos Ezquerra: Mega City One (Judge Dredd)found on AMNP and AJ

AJ Top Five: Comic Book Cities from The Architects’ Journal on Vimeo.