I've been archiving ALL the ROMs myself. I don't bother with the XXXX ones, but the standard 0001-current....yeah.
I have terabytes of hard drive space, so it's no sweat to save them all. I zip them in packs of 50. Once I get enough to burn to a DVD, that's what I do.
The only reason I do it is because the DS is the first system I've had since launch, I have the HD space and because I can. I was starting to do that with older systems (GBA, Genesis, SNES, etc.) but I decided to only archive the games I actually like on those because I wasn't there for those since the beginning like I have been for the DS. I'm not usually an early adopter.
I only trim the ones that I put into my R4. Otherwise they all stay as the original downloaded zip.
My friend's two daughters have R4's, but they don't have home access to PC's, so I have the DVD's and a laptop to hook them up with the latest every few weeks.