Pokemon Mystery Dungeon

Bioshock

Masterpiece. Not the funnest, but certainly the best game I've ever played.

Specifically for older titles, I'd definitely say a game like, if anyone could find the original first version to ever be released of the game and not one of the many rip-offs/clones, Tetris. It's probably, as far as I'm aware, the most copied/cloned/ripped-off game in existence.

As for newer titles ( 2000 onwards ), I can't think of any that I think should 100% be in museum. Most of the titles I can think of aren't good enough, in my opinion, to go into a museum. I'm not an expert on judging what should go into a museum, but I couldn't think of a single title that would fit in any exhibit.

Edit:

Tetris is already in the video game hall of fame. Should have figured. Definitely deserves its place there. Even so, someone with a floppy of the original or clone of the floppy or digital backup should definitely see if there are any museums willing to take a copy because the original is something I think would be a shame to completely lose.

Looking at it from a general perspective that has less to do with games themselves; I would say huge parts of the Assassins Creed games due to the accuracy they often have had with depicting historic architecture and such. ~~Heck, they used the games model of the Notre Dame in its reconstruction.~~ EDIT: [So I just looked this up and apparently it's just a nice story that has stuck. But the actual model was never used.]

From a more game-focused perspective, there are some real gems in there too (especially the Ezio-Series). Tho that quality has sadly not kept.

System/BioShock

Pong Pac-man Super Mario Pokemon Dark Souls Tetris Wii Sports Halo The Sims

All Rockstar games belong in the garbage