I've played the VC version on the Wii as well as emulating the original PCE version, from my experience they're pretty much identical!
Have fun ^^
Oh and, about the whole modern vs retro gaming thing, back then they had more room for experimentation because games didn't cost as much or take as long to make, so they didn't have as much to lose in case their game failed, and they often had loads of other games to fall back on in case that happened... Nowadays games cost bajillions and take forever to make, so one bad game can kill a games company (unless they have really deep pockets)
That leads to them not trying new things very often, taking less and less risks and trying to appeal to the broadest demographic possible so that they can make 'some' profit, which leads to homogeneity...
Back in the day each company had pretty much their own style, you could tell a game was made by Hudson, Capcom, Konami, Sunsoft or Namco for example just by looking at it and listening to it, but now almost everything looks and sounds the same in their endless pursuit for realistic grafx and cinematic feel...
All that said though, we have one thing that is better now than it's ever been before, and that is the indie scene! Nowadays anyone with the right amount of knowledge and skill can easily publish a game! Some of the best games we've gotten in recent memory have been indie, and that happens because Indie game companies are in the same position right now that the AAA companies were back in the 80s and 90s, their games don't cost as much to make, so if they fail they're not completely screwed, and because of that they can take more risks and experiment more!