Thomas and Twilight Sparkle's Adventures of Spider-Man: Homecoming is the sixteenth Thomas/MLP:FIM/Marvel crossover made by Hiatt Grey and Stuingtion. And is the sequel to Thomas and Twilight Sparkle join the Guardians of the Galaxy Vol. 2.
Following the Battle of New York, Adrian Toomes and his salvage company are contracted to clean up the city, but their operation is taken over by the Department of Damage Control (D.O.D.C.), a partnership between Tony Stark and the U.S. government. Enraged at being driven out of business, Toomes persuades his employees to keep the Chitauri technology they have already scavenged and use it to create and sell advanced weapons. Eight years later, Peter Parker is drafted into the Avengers by Stark to help with an internal dispute, but resumes his studies at the Midtown School of Science and Technology when Stark tells him he is not yet ready to become a full Avenger.
Parker quits his school's academic decathlon team to spend more time focusing on his crime-fighting activities as Spider-Man. One night, after preventing criminals from robbing an ATM with their advanced weapons from Toomes, Parker returns to his Queens apartment where his best friend Ned discovers his secret identity. On another night, Parker comes across Toomes' associates Jackson Brice / Shocker and Herman Schultz selling weapons to local criminal Aaron Davis. Parker saves Davis before being caught by Toomes and dropped in a lake, nearly drowning after becoming tangled in a parachute built into his suit. He is rescued by Stark, who is monitoring the Spider-Man suit he gave Parker and warns him against further involvement with the criminals. Toomes accidentally kills Brice with one of their weapons, and Schultz becomes the new Shocker.
Parker and Ned study a weapon left behind by Brice, removing its power core. When a tracking device on Schultz leads to Maryland, Parker rejoins the decathlon team and accompanies them to Washington, D.C. for their national tournament. Ned and Parker disable the tracker Stark implanted in the Spider-Man suit, and unlock its advanced features. Parker tries to stop Toomes from stealing weapons from a D.O.D.C. truck, but is trapped inside the truck, causing him to miss the decathlon tournament. When he discovers that the power core is an unstable Chitauri grenade, Parker races to the Washington Monument where the core explodes and traps Ned and their friends in an elevator. Evading local authorities, Parker saves his friends, including his fellow classmate and crush Liz. Returning to New York City, Parker persuades Davis to reveal Toomes' whereabouts. Aboard the Staten Island Ferry, Parker captures Toomes' new buyer Mac Gargan, but Toomes escapes and a malfunctioning weapon tears the ferry in half. Stark helps Parker save the passengers and takes away the suit.
Parker returns to his high school life, and eventually asks Liz to go to the homecoming dance with him. On the night of the dance, Parker learns that Toomes is Liz’s father. Deducing Parker's secret identity from Liz's account about him, Toomes threatens retaliation if he interferes with his plans. During the dance, Parker realizes Toomes is planning to hijack a D.O.D.C. plane transporting weapons from Avengers Tower to the team's new headquarters, dons his old homemade Spider-Man suit and races to Toomes' lair. He is first ambushed by Schultz, but defeats him with the help of Ned. At the lair, Toomes destroys the building's support beams and leaves Parker to die. Parker escapes the rubble and intercepts the plane, steering it to crash on the beach near Coney Island. He and Toomes continue fighting, ending with Parker saving Toomes' life after the damaged Vulture suit explodes, and leaving him for the police along with the plane's cargo. After her father's arrest, Liz moves away, and Parker declines an invitation from Stark to join the Avengers full-time. Stark returns Parker's suit, which he puts on at his apartment just as his Aunt May walks in.
In a mid-credits scene, an incarcerated Gargan approaches Toomes in prison. Gargan has heard that Toomes knows Spider-Man's real identity, which Toomes denies.
- Big Grizz, Steamy, Puffy, Evan, Shai-Shay, Rodger the logging loco, Rattlesnake Jake, 1206, Socky, Skunky, J.J., Buzz, Mako, Shema, Sharky, Willy, Mr. Great White, The Miner Trains, The Planet Trains, T.C., Hugs, Sherin, Marshall P.F., General Dedrich, The Trolley Fighters, Timber, Splinter, Chomper, Whiffle, Falcon, Ed, Edd, n Eddy, The Powerpuff Girls (Blossom, Bubbles, and Buttercup), Spencer, Duck, Donald and Douglas, Oliver, Toad, Ryan, Ashima, Annie and Clarabel, Button Mash, Babs Seed, Zecora, Princess Celestia, Princess Luna, Coco Pommel, Cheese Sandwich, Princess Ember, Gabby, Coloratura, Tempest Shadow, Grubber, Songbird Serenade, Capper, Captain Celaeno, Princess Skystar, Queen Novo, Hiccup, Toothless, Astrid, Stormfly, Snotlout, Hookfang, Fishlegs, Meatlug, Ruffnut and Tuffnut, Barf and Belch, Team Griffin/Eeveelution, The Griffin Family, Vinny Griffin, Glenn Quagmire, Cleveland Brown, Joe Swanson, Little Bear, Duck, Cat, Owl, Hen, Emily, Lucy, Doug Funnie, Skeeter Valentine, Roger Smith, Bender Bending Rodriquez, Minerva Mink, Natsu Dragneel, Lucy Heartfilia, Gray Fullbuster, Erza Scarlet, Wendy Marvell, Happy, Carla, Master Shake, Meatwad, Frylock, Belle (Thomas & Friends), Flynn (Thomas & Friends), Sunset Shimmer, Skarloey, Rheneas, Sir Handel, Peter Sam, Rusty, Duncan, Hiro, Charlie, Victor, Kevin, Knockout, Puffer, Dolphy, Rachel, Mighty Joe, Daylight, Jenny, Pete, Kevin, Morley, Blitzer, Dile, Dusty Crophopper, Blythe Baxter, Zoe Trent, Pepper Clark, Penny Ling, Vinnie Terrio, Sunil Nevla, Minka Mark, Russell Ferguson, Gail Trent, Mitzi, Buttercream Sunday, Sugar Sprinkles, Captain Cuddles, Nutmeg Dash, Youngmee Song, Sue Patterson, Jasper Jones, Jenny Wakeman, Dudley Puppy, Kitty Katswell, Hanah Streaker, Figge, Belle, Ariel, Princess Jasmine, Merida, Mulan, Mushu, Princess Anna, Queen Elsa, Pocahontas, Cinderella, Esmeralda, Mordecai, Rigby, Margaret, Eileen, Skips, Benson, Muscle Man, Skips, Hi-Five Ghost, Team Chugger, R3-X3 (Rax), Kanan Jarrus, Ezra Bridger, C1-10P (Chopper), Garazeb Orrelios, Sabine Wren, Hera Syndulla, Judy Hopps, Nick Wilde, Derpy Hooves, Octavia Melody, Vinyl Scratch, Lyra Heartstrings, and Bon Bon guest star in this film.
- Ernie the Giant Chicken, Sideshow Bob, Bobby Briggs, Sheriff Nichols, Team Galactic, Mojo Jojo, The Rowdyruff Boys, Diesel 10, Splatter & Dodge, and the Dazzlings will work for the Vulture in this film.
- The storyline continues in Thomas and Twilight Sparkle's Adventures with Thor: Ragnarok.