One of the most underrated aspects of Wolverine's mutant abilities is his ability to track people he's looking for. He's got superhuman senses, meaning he can sniff out a problem (or person) from miles away. Wolverine even used his nose once to seemingly find out Spider-Man's biggest secret - his real identity.
In Todd McFarlane's Spider-Man (issue #8-12) series from 1991, Wolverine was tasked with figuring out what was happening in the town of Hope, British Columbia, where children were mysteriously getting murdered. The blame was placed on a monster called "Wendigo" who the towns-folk thought was responsible. However, Wolverine uses his nose to snuff out the situation which leads him directly in the path of Peter Parker - who's in town on direct orders from J. Jonah Jameson to snap pictures of the incredible monster.
Wolverine asks Peter for help with Wendigo and solving the case. However, Wolverine (in the shadows and unseen) doesn't hesitate by calling him Spider-Man. "Uh what did you say?" Peter responds. Wolverine than disappears as he monologues that he's just as surprised to see Spider-Man in British Columbia as Spider-Man is to see him. Peter openly wonders how someone more than 3,000 miles away from New York could know who he is. Thankfully, Peter isn't too concerned considering his spider-sense didn't go off in Wolvie's presence.
So, how did Wolverine figure out Peter Parker was Spider-Man? It's all in his nose. Wolverine just so happened to head into town at the right time in search of help. He recognized the scent of Spider-Man (without his suit) and drew the natural conclusion that Peter Parker is the web-slinger. It might have been a huge coincidence that Spider-Man was in the same Canadian town as him, but the happenstance allowed him to get much-needed help in figuring out the true child killer in the town. He uses those same super senses to figure out Wendigo wasn't at the scene of one of the young boy's murders.
Eventually, Wolverine and Spider-Man team-up with the Wendigo and find another body in the woods. Logan even threatens to reveal Spider-Man's real identity if he doesn't comply with his plan in solving the murders. By the arc's end, it's revealed a police officer sexually abused and murdered the kids - and the man is eventually killed by hunters as he tries to escape Wolverine's interrogation. Ultimately, the comic reaches a dark conclusion but at least Wolverine and Spider-Man manage to figure out the killer and clear the monster's name. Wolverine's keen sense of smell and detective work was on full display in the series, as not only does he solve the small-town murder, but he discovers Spider-Man's secret identity.