I agree that boxed games are cool! I had the original Turrican C64 version on tape with box. Also some System 3 titles but sadly my parents threw them away when they cleaned their home...
For new games I think that making games with boxes could be cool too. I also agree that emulation isn't the real thing.
But distribution of new games through internet is really a good way; especially with Amiga games because you can reach more people that way.
So my advice is to make games and do distribute them in adf files.
If you want to make sure that they are played only on real Amigas maybe you can build in a check that looks if the game is being run on UAE? The program WhichAmiga can determine what machine one has; it can somehow detect uae too.