Even if Iron Man still believes he's a hero, he cannot hide his true nature from his most perceptive colleagues, such as Wolverine. Logan perfectly understands Tony Stark's amoral nature, to the point that he made him promise not to experiment on his body in case he ever died, a promise that Iron Man is unlikely to keep.
Tony Stark has always struggled to fit into the classic "hero" label, due to his explosive mix of insecurity with a conceited and egocentric personality. Among Marvel's most prominent heroes, Iron Man has perhaps made the most mistakes, including his "Armor Wars," his position in the first superhuman Civil War, and more personal issues such as substance use disorder. Most recently, Tony acquired godhood after imbuing himself with the Power Cosmic, and after killing his best friends and turning New York into a big twisted experiment, he referred to the whole thing in front of the media as simply a "messy process," proving that he is still unable to learn from his mistakes. However, some heroes can see through Tony's projected image of a benefactor, and Wolverine is one of them.
During Hunt for Wolverine: Adamantium Agenda, by Tom Taylor, R. B. Silva, and Jesus Aburtov, the New Avengers try to retrieve the body of Wolverine—who had been recently killed. This is because, months before, in the aftermath of a battle, Logan talked with Iron Man, and asked him to leave his body alone if he ever died. Because Wolverine had been an experiment subject for his whole life, he did not want his body to be turned into a weapon. While this is an understandable concern, what is surprising is that Logan had to ask Iron Man, his teammate in the New Avengers and one of his closest friends at the time, to actually promise not to experiment on his corpse.
Wolverine had very sensible reasons for not trusting Iron Man. Not too long before that conversation, during the first Superhuman Civil War, the whole hero community was shocked to learn that, after Thor's death, Tony used his cells to clone him into a half-cyborg that was essentially a weapon that Iron Man could point against his enemies. It was a monstrous and immoral act and just one of the many "Tony mistakes" that were quickly forgiven and forgotten. However, Logan did not forget. He perfectly sums up Iron Man's issues by reminding him that "You sometimes see potential before you see a person, Tony."
This is a perfect description of the so-called hero Iron Man. Tony is always convinced that he knows better than everyone else, which leads him to forge his own set of flexible morals that he can adapt to any situation. Logan, however, has been alive for a very long time, and he has seen the worst of humankind, often by looking into a mirror. Wolverine has learned the difference between hero and villain, and he knows that, too often, Iron Man is closer to being the latter.