While not as notable, I am surprised to see Donkey Kong Jr. get picked up for the Virtual Console service. Simply put, Mario is the villain in this one. It is a classic part of Mario's history, but with the eggshells people step across these days, it's nice to see them release it as is, not pallete swapping in a Wario to the villain role.
I have done many a "Games Worth Finding" article through my time with GoozerNation, discussing games worth finding in an arcade, on Nintendo, Game Boy, the works. A few have since been released as digital downloads, which is very exciting. This list, though, I see no future for. Might as well start digging through the junk stores instead of pining for the "one day" download on these bad boys.
1) Duck Hunt/Light Gun Games: Perhaps the greatest slight ever on Nintendo's fault, this is more likely due to technology. Have you played a light gun game on a modern system? Unless it comes with a proprietary gun, waggling Wiimotes, in a plastic gun shell or not, won't come close to the accuracy of a light gun. Light guns take a brief image of what they're seeing on screen to determine what you're shooting at (if you pay attention, you'll see a box flash right as the screen flashes around each duck). Wiimotes only estimate where you're aiming at in regards to the sensor bar, which is not an integral part of your TV. You can move the sensor bar to the other side of the room and still play a game, so long as you aim in the right direction. That's why most shooters on Wii have a targeting reticle. Sadly, HDTVs don't have the CRT bars on the television, meaning your light gun won't work on them anyways. For this one, you not only need the old console, but an old television in order to ever enjoy it again.
2) Night Trap/Early M-Rated Games: This game has gone down in infamy. One of the first games attacked by the government for being far too mature, it pales in comparison to some of today's standards. Yet, the media would latch onto this one like a leech. Any developer brave enough to think about putting this one out for people to experience again would be in for a media storm of gargantuan proportions.
3) Dick Tracy/Licensed NES Games: DuckTales Remastered is showing me up on this one, but I have fear I'll never see some of my favorite games from the NES and Super NES. Dick Tracy and The Rocketeer, Aladdin, it was actually a good time to play licensed games before the glut of "me too" licensing. But if I ever want Dick Tracy on my Wii U, they're going to have to get the comic license and talk to Warren Beatty and Madonna for their permission to use their faces. By the time they do that, they'll have to up the price of the game, and I'm sure Nintendo won't see the justification in busting out these titles again.
4) The Zelda CD-i Games: These are the black sheep of the Zelda series and don't even show up on the official chronology of the games. And yet, I have a morbid curiousity to play them. But I don't think Nintendo will re-release them though... I'm sure they don't want to tarnish the current popularity of Zelda, nor go through the rights licensing, or cause people to doubt the Nintendo Seal of Quality by featuring them on a release list. Plus, I bet I'm in the minority of people who are interested in torturing myself this way.
5) Eternal Champions: Challenge From the Dark Side/Sega CD Games: While Sonic CD has been re-released, I was disappointed when the cartridge version of Eternal Champions was the one released on Virtual Console. The CD sequel added four main characters and a slew of hidden characters, including those as bizzare as a chicken and a snake. I loved the combat style more than Mortal Kombat or Street Fighter. The game had a way to limit how often you can use your special moves though. Unfortunately, the FMV sequences are muddy and choppy, load screens are bland and uninteresting, and in regards to most all Sega CD games, they are a niche market as the system was itself. This is the kind of game that deserves a remaster instead, or maybe the originally planned part 3 of the trilogy. Come on, someone pick this license up!
So there are my Top 5. For history's sake, these games or genres really should be opened up to Virtual Console services, but technological or licensing restrictions will probably doom them to forever sit on their original cartridges. But hey, we got Earthbound, so I can hope...