As much as I enjoy seeing Spider-Man interact with the other heroes of the Marvel Cinematic Universe, I feel like he can still be improved. So here's how I would handle the wall-crawler in the MCU.
Captain America: Civil War
For the most part, Peter's role in Civil War would remain the same. However, he wouldn't idolize Tony like in the real MCU, and he would make the Stark suit, which means no Iron Man technology in it. Stark would find him and ask him to join him in arresting Steve Rogers. He would tentatively agree and switch sides after his brief fight with Captain America, confronting Tony after Rhodes breaks his back. They have a brief argument and Stark sends Parker home.
This is where my biggest change to MCU Peter comes into play. Due to what happened in Civil War, Tony keeps a close eye on Peter, who does his crime-fighting under the radar. He's becoming extremely stressed and his grades are slipping, attracting suspicion from Aunt May. When the robbers try to rob the ATM, the owner of the deli across the street is killed. The police become distrustful of him, forcing him to operate more stealthily. Shocked, Peter decides to look into the Chitauri weapons that the criminals used, which leads to a run-in with the Vulture. Tony and Peter have another argument, and Stark threatens to arrest him if he tries to stop Vulture again. I should also mention that Peter doesn't get allowed back onto the decathlon team, which retcons the whole Washington DC part. So the next big scene is the ferry scene, where Tony intervenes, but Peter webs him and escapes in the middle of their argument. Stark sends some soldiers to find him, which pressures Peter even more. He tells the same lie to Aunt May about losing the internship, and she gives him the motivation he needs to defeat the Vulture. Stark is actually impressed and decides to let him continue operating under the Accords. The two are slowly starting to warm up to each-other.
Avengers: Infinity War
Peter intervenes in the Black Order's attack on New York, which forces him into an uneasy alliance with Tony Stark. Not wanting Ross to find out that Peter is operating without supervision, Tony gives him the Iron Spider to ensure that he's as safe as possible so Ross wouldn't hear about Parker's death if it were to happen. They go after Doctor Strange, who has the same feelings towards them as he did in the actual movie. Peter and Tony form a father/son relationship, and Peter still dies, leaving Stark stranded on Titan, only with Nebula.
"Part of the journey is the end..."
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