Most would say that FOA beats all, and I'd pretty much agree.
For me personally, Last Crusade graphic adventure holds a special place in my heart. It was the first true computer game I ever played as a kid (besides some great old ASCII ones), the first one I ever beat, and the single influence that made me become a lifelong Jones fan. Even going back and playing it, I still can't get enough. And I quite like the liberties it takes with the film, especially the fact that it allows you to go on some pretty wildly divergent paths from the actual film's storyline (getting Hitler to sign an official travel pass instead of the Diary, skipping the zeppelin, the alternate endings, etc.) The only thing I wish it had was some sort of playable version of the desert tank scenes. Even if it wasn't an action sequence like in the movie, they definitely could have done SOMETHING with it. Given you some great puzzles to solve in the desert just getting to the canyon, then figuring out a way into the tank, rescuing Henry, beating Vogel--it definitely could have been done. Great game.