In 2005, author Brian Michael Bendis had Wolverine join the New Avengers. During the miniseries House of M, Wolverine is able to recall that his previous memories and uses mutant Layla Miller, to deconstruct the world Scarlet Witch created. Wolverine is one of the few characters who can remember the House of M world and seeks out to enact vengeance on those who wronged him. In Wolverine: Origins, the character's second solo series, Wolverine discovers that he has a son named Daken, who has been brainwashed and made a living weapon by the villain Romulus, the man behind Wolverine's own brainwashing. Wolverine then makes it his mission to rescue Daken and stop Romulus from manipulating or harming anyone again.
At the beginning of the events of Schism, Cyclops thanks Wolverine for always being there for him as they seem to finally have come to a mutually spoken and understood respect for each other after years of fighting and rivalry. While at a conference for weapon control, Kid Omega (Quentin Quire) launches a psychic terrorist attack on the ambassadors present. In response, Sentinels are deployed at the conference and are disposed of by Cyclops and Wolverine. Due to growing fears of mutant threats, countries around the world begin to mobilize their Sentinel forces. As Cyclops begins to deploy X-Men around the globe to deal with the threat, Wolverine returns to Utopia to find Hope Summers and the Lights waiting for their combat training lesson. After insulting Hope's team and realizing that Idie is losing her childhood, Wolverine asks Kitty Pryde to make him a doll to give to Idie. Wolverine gives the doll to Idie and eats ice cream with her while news reports of Sentinel activity play and tensions build around Utopia. Sometime after, Kid Omega shows up on Utopia. Wolverine tries to attack Kid Omega when Cyclops stops him. While Cyclops sends a team of some of his most powerful X-Men, as well as some of the island students, to a local mutant museum exhibit as a "show of force", Wolverine goes to a local bar to sulk in his aggravation with the current situation. The new Hellfire Club attacks the exhibit and incapacitates all senior X-Men present. As Wolverine rushes to the museum to help from the bar and Cyclops flies in from Utopia, Idie asks if she should kill the Hellfire Club to help. While Wolverine protests against it profusely, Cyclops tells Idie to do what she feels is right. Idie kills almost every Hellfire Club member left to save her friends and mentors. Wolverine pops his claws at Cyclops in anger that he used a child to save the day, but restrains himself when he realizes what he is doing.
Wolverine vol. 3, #57 reveals that when Wolverine is injured so seriously that his body actually dies before his healing factor can repair the damage, he returns to life by fighting with Azrael, the Angel of Death, while trapped in Purgatory because Wolverine defeated Azrael in real-world combat during World War I. However, after Wolverine's resurrection and brainwashing by the Hand, he made a new deal with Azrael that repaired the damage to his soul, negated their previous arrangement, and weakened his healing factor slightly - and the next time Wolverine sustains death-inducing injuries, he will remain dead. 59ce067264