Here's my question. This was probably asked and answered (and probably by me) a while ago, but I can't remember, and randomly musing about the movies made me realize... at least where Last Crusade is concerned, almost none of these deleted scenes are in the script(s); at least not in any draft I've ever seen. They're in the comic and novelization, yeah, but in the actual script, the one making the rounds on the Internet, they're MIA. That script reads less like a shooting script and more like a transcript of the film written as a script. What gives?
And also, a few of the deleted scenes from Raiders are not in its script(s), either, particularly the scene involving Sallah and the young Nazi soldier who lets him go. According to the Indy wiki, the scene isn't even in the comic and novelization. I can't speak for the comic but it definitely isn't in the book.
Since Marvel Comics and Campbell Black were working with the script to write the comic adaptation and the book respectively, if the scene existed in the draft they were working from, you'd think they'd have used it, instead of their explanation that (according to the wiki) "Sallah says he escaped punishment by convincing Dietrich that Indy had tricked him and the other diggers into thinking he was a German officer," which, while an impressive display of bullsh*tting on Sallah's part, just isn't as interesting as him staring down the young Nazi and effectively guilting the guy into letting him go.
I agree that Spielberg and co. were probably right to cut it (despite loving it to pieces, they had pacing to think of); I just wish it'd also ended up in the adaptations along with the other cut material and I'm curious why it didn't. Was it something unscripted and thought up the day of filming, and so wasn't in the draft Marvel and Black were provided with? This seems to be the most likely explanation, especially since I've also read Martin Kreidt, who plays the Nazi assigned to kill Sallah, was a tourist in Tunisia and probably cast the same day they filmed the scene.
What does the making-of book say?