The irony of that though was that as "evil" as Stark was potrayed in that event, it really was followed by arguably the biggest push the character has ever gotten in his history. Movies, cartoons, etc. Not to say that he necessarily got it because of Civil War... but it certainly didn't hurt the character one bit, if you look at where he's at now versus where he was during Civil.
And that's probably something to keep in mind when some are afraid that their favorite character might be "ruined" or whatever in a story. AvX or whatever.