I seriously hope so and I have to believe they will if they want to follow through on trying to capture the home entertainment hub market they so covet.
Of course, I have the same opinion of their current trophy/achievement position. If they want to stay competitive with Sony and Microsoft and be inviting to third parties they need to adopt what has become established as industry standards.
I really hope so. I was sad when I got my 3DS stolen and I lost all my ambassador deal games and some club nintendo games. It'll be great to download them all again and only have them sync up with my club nintendo account somehow and have them to be able to re-download for my new 3DS. The only downside to this is that the stolen 3DS still have the games, but maybe make them playable only by using Wi-Fi, but then again, that will make other customers frustrated.
Who knows, but once they have a similar system to Xbox and PS3, I know they will get a lot more business from me as I'm running out of room for my collection.