Bugs Bunny says the "that's all folks" catch phrase. Porky Pig arrives and says "that's my line". Daffy Duck then interprets and attempts to say the catch phrase. However, he is pushed out of the screen by the aliens who then say the catch phrase. Michael Jordan pushed the screen up and asks "Can I go home now?"
Bullseye, having been moved to a prison hospital and severely bandaged after his confrontation with Matt, is shown to still have his perfect aim after he impales a fly with a syringe needle and says "Bullseye."
Kyle and JB sit around a tape recorder, with JB telling Kyle not to make a sound unless it's a masterpiece. Kyle asks how he will know it's a masterpiece, to which JB replies that he will feel it. A few seconds later, Kyle farts. JB asks to wind the tape back.
A strange static-filled voice is heard. When played backwards, the voice might say "It's still alive", suggesting that the monster survived the nuclear attack on it, although some online debate exists on this subject. 
Mulder and Scully head across the sea towards a tropical island in a row boat, waving to the camera above.
Note: While the Marvel Cinematic Universe film The Incredible Hulk technically does not have an end-credits scene, the final scene directly before the credits (where Tony Stark approaches Gen. Ross) is structured like many similar scenes that do take place during or after the credits in an MCU movie, planting seeds for future films (although Ross would not be seen again until Captain America: Civil War).
Tallahassee struggles to find adequate final words for Bill Murray. Eventually Murray himself appears and helps Tallahassee recite a line from Caddyshack: "In the immortal words of Jean Paul Sartre...au revoir, gopher."
Erik Selvig is taken to a S.H.I.E.L.D. facility, where Nick Fury opens a briefcase and asks him to study a mysterious cube-shaped object,Template:Refn which Fury says may hold untold power. An invisible Loki prompts Selvig to agree, and he does.
The alpha wolf lies on the ground taking two breaths, the second being a long, deep, and final exhale... similar to a wolf shot and killed by Ottway earlier in the film. Ottway lies against the wolf, viewed from the back.
Dr. Connors, in a prison cell at Ravencroft, speaks with a man in the shadows who asks if Peter knows the truth about his father. Connors replies “no”, and demands Peter to be left alone before the man disappears.
Tony's narration throughout the movie is revealed to be a counseling session that he's having with his friend Dr. Bruce Banner, despite Bruce's strenuous objections that "I’m not that kind of doctor. I’m not a therapist!"
In a scene from the then-upcoming Civil War,Captain America and Falcon discuss what to do about the Winter Soldier. Falcon says he knows "a guy" who can help him (meaning Scott Lang, the hero of this movie).
The Australian tank gang from the first film finally reach California one year after floating across the Pacific Ocean and are picked up by staff members from the Marine Life Institute. Meanwhile, Gerald finally gets on Fluke and Rudder's rock without them knowing.
Waller meets with Bruce Wayne, who agrees to protect her from the backlash against her role in Enchantress' rampage in exchange for access to the government's files on the expanding metahuman community. Waller then advises him to stop working late nights, to which Bruce answers her to shut down Task Force X or else he and his "friends" will do it.
Adorable Baby Groot has now grown up into grumpy Teenage Groot, who plays video games and refuses to clean his room.
Stan Lee tells a rambling story to an audience of clearly bored Watchers. The Watchers begin sidling slowly away as Lee calls after them, "Wait! I've still got more stories!" Kevin Feige states that the scene is meant to confirm that the Watchers exist in the Marvel Cinematic Universe and that Lee was meant to be the same person in all his cameos.