Night at the Museum
- Near the end of the film, just as the sun is about to come up. Jedediah and Octavius show up, alive and well. During the chase with Cecil, Larry saw them crash, and he's having a solemn talk with Roosevelt about their deaths. Then they come striding up, looking ten inches tall, and....Jedediah: You wont get rid of us that easy.
- The beginning of Jedediah and Octavius' friendship might also qualify, especially from the viewpoint of the later films.
- At the end of the film, the museum has more people coming in then ever before. And it's all thanks to Larry.
- The way Larry got the exhibits to make peace with each other and him: he talked to them and made what concessions he could. It was heavily implied that the older guards led by Cecil would just lock up/restrain them as quickly as possible and weren't very nice to them.
- It's a very brief scene, probably five seconds long, but during the chase scene, Ahkmenrah and Nicky are riding on Rexy's back, and the camera closes in on them - and they're both smiling and laughing and having a fun time together.
- At the very end, the museum inhabitants are having a party, just having fun together, while Larry watches over them. This by itself is sweet, considering that for the longest time - probably ever since the tablet was brought to the museum - none of the exhibits seemed to get along. But there are brief moments where you can see Ahkmenrah enjoying himself with the others, playing soccer and dancing. And you remember that this is probably the first time in a long time (over fifty years, at least) he's had this kind of experience, and that he went from being the Pharaoh that was kept locked away to a friend in the eyes of the exhibits.
- Larry telling Ahkmenrah's jackal-headed statues that he'll watch out for the Pharaoh.
- "Nick, your father is a great man."
- A small one in that Larry isn't just friendly with Erica, but he gets along with her new husband too.
Battle of the Smithsonian
- When Larry gives the inspirational talk to a depressed Custer about putting the past behind him during the big battle.
- The moment when Amelia and Larry share one last quiet moment before the climax of the movie.
- When Larry and Amelia Lookalike hook up (or, at least, it is hinted that they do) at the end.
- The Tuskegee Airmen acknowledging Amelia Earhart's role in aviation history, particularly her similar position to theirs (black people and females, Once Acceptable Targets no more)."A lot of people didn't think we could fly either. Thanks for clearing the runway, ma'am."
Secret of the Tomb
- It's revealed that the magic tablet was created so that Ahkmenrah's family could be together forever, and nothing, not even death could separate them. Really shows how much his father loves his son.
- The ending. It's been three years since the tablet left the museum and since any of the exhibits came to life. Larry has left the museum, seemingly for good and become a teacher. At the end, Rebel Wilson's character, Tilly, is bringing some items from the British Museum, including a box that contains the Tablet. It activates and all the exhibits come to life again, McPhee watching them with a smile growing on his face. Outside, Larry has also seen this and smiles. It's subtly implied that Larry told Tilly to bring the tablet back to the Natural History Museum.
- It's a very sad moment near the ending, but it's sweet that Jed and Octavius decided to die holding hands.
- Dexter kissing Larry near the end.
- It was nice to see that Larry was now in good terms with the antagonists of the first film (except Gus who still resents him).
- "Smile my boy. It's almost sunrise"
- The last dialogues between Larry and the exhibits all qualify: Larry tells Jed and Octavius he will remember "how big you guys were", then there's Attila actually speaking in English for the first time saying " Larry. Friend", and last the aforementioned Theodore's "Smile, my boy. It's almost sunrise." They may also count as tear jerkers since Larry is saying goodbye to them, knowing he won't see them ever again.