YES!
Tucked away on the official page for the Nintendo 3DS ( and yes, in the press release) is confirmation that Nintendo has finally come to their senses in regards to digital purchases.
"System Transfer is a feature that enables you to transfer downloadable software already purchased on a Nintendo 3DS system to another Nintendo 3DS. Nintendo DSiWare games & applications purchased on a Nintendo DSi or a Nintendo DSi XL system also can be transferred to your Nintendo 3DS.* This function will be available after hardware launch. "
The site goes on to say that there will be a limit to how many times transfers can be made and that some software may not be transferred.
More information is promised soon. I sure hope they'll let owners of the DSi who aren't upgrading to do this as well. I'd also love to know if this is being done with hardware of if they're moving to the ability to redownload purchases tied to a single account.
Stay tuned to Kotaku's 3DS page for a day full of updates, interviews and videos.