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When I was a child I picked out Gold Version because my friend had it and I wanted the same game as him. Now that I'm older and have played both I actually prefer Silver over Gold.
I don't really have a preferred version, but the first time I played, I played Gold because it sounds better than Silver (as in gold is awarded to first and silver to second)
Pokemon Silver was my favorite game when I was really young. I got my Feraligator, Ninetales, and Umbreon to level 100. My Espeon was around the 60's. I had so much time on that game played.
I prefer Silver instead of Gold. Not because of Lugia in the box like many of you mentioned, because most of the Pokemon I prefer to have in my party are exclusive to Silver. Lanturn and Skarmory are both only available to Silver, which is why I do not prefer to play Gold.
Can't really say, because the deciding factor always has to do with the sprites of the Pokemon. Because there are some Silver sprites that I like better and some Gold sprites that I like better. So it's really even for me :I.
So it comes down to which exclusive move you wanted really. I always owned both versions of gen 1 and 2 games. Now the only way to have Aeroblast or Sacred Fire was to play the version with mascot on it. I personally found Ho-oh's exclusive move to be better as Sacred Fire was based off of Special Attack. However I liked the other version exclusive Pokemon in Silver better. I believe it was because Silver had the same set of gen 1 exclusives as Blue more or less and I always took the Blue exclusives over the ed exclusives.
Overall both are great games and I always played both back to back or traded between versions with myself. So I'll say Silver just because I found the title screen cooler.
Pokémon Silver, with the simple reason that that was the version I chose when the games first came out. In retrospect, I probably should have chosen Gold, because now I like Ho-oh so much more. XD