Jeff Bridges' Stane worked quite well, he had a lot of interesting scenes with Tony Stark. A bit similar to the relation Bruce Wayne had with Ra's al Ghul. Their last CGI battle was crap though. Poor CGI overload.
It's not just the Marvel film that occasionally deliver dull villains for their much better developed heroes to take on though - Talia al Ghul from Nolan's film was poorly executed, almost reduced to an afterthought. General Zod in MoS was pretty meh. His female henchman stole every scene she was in.
It might also have something to do with myself not being the real target audience for these films. I don't have these characters backstory from the comics to draw upon - usually I only have what's up there on the screen in every film and I compare what I'm seeing with other familiar villains outside the superhero genre.