Ok here's the story. Since I sold my 3DS XL I was performing a System Format cuz I read that was the only way to Unlink your 3DS to the Nintendo Network ID. So yeah I did it. After the 3DS Rebooted there was no games on it and I was thinking "Ok thats fine now I can go to the eShop and Redownload them"
I went to the eShop>Settings/Others>Your Downloads and there was only Dinosaur Office and Swapnote.
Ok I called Nintendo and the explained everything I did to the guy. He asked me the 3DS XL's Serial Number(In the past with that Serial Number they could see what Games you've downloaded) but he checked on the System only appeared Dinosaur Office and Swapnote. I gave him my Nintendo Club Account Info and none of the games appeared. So he asked me to Re-Link the 3DS to my Nintendo Network ID which I did. So when Linking he told me "The Games now Appear in the System". He told me to go see if the games appear in my Download List now. And Yes the games are now there and I can Redowload them even the ones that I obtained by System Transfer and Super Mario 3D Land(Nintendo Promotion earlier this year).
The Cool thing is that I asked him if I could use this account on another 3DS and will be able to download the games from the eShop and he told me "Yes but only one 3DS can play the games".
So there you have it. The games are linked to the Nintendo Network Account not the System. Is really awesome!
EDIT
I went to the eShop>Settings/Others>Your Downloads and there was only Dinosaur Office and Swapnote.
Ok I called Nintendo and the explained everything I did to the guy. He asked me the 3DS XL's Serial Number(In the past with that Serial Number they could see what Games you've downloaded) but he checked on the System only appeared Dinosaur Office and Swapnote. I gave him my Nintendo Club Account Info and none of the games appeared. So he asked me to Re-Link the 3DS to my Nintendo Network ID which I did. So when Linking he told me "The Games now Appear in the System". He told me to go see if the games appear in my Download List now. And Yes the games are now there and I can Redowload them even the ones that I obtained by System Transfer and Super Mario 3D Land(Nintendo Promotion earlier this year).
The Cool thing is that I asked him if I could use this account on another 3DS and will be able to download the games from the eShop and he told me "Yes but only one 3DS can play the games".
So there you have it. The games are linked to the Nintendo Network Account not the System. Is really awesome!
EDIT