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I couldn't agree more. It is just plain crazy for some people to spend so much money on these things on ebay. Basically, if there are only a few hundred of these available out of an entire series, you can guess that they're going to be worth at least a couple of thousand dollars - especially if it's still new in box.
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I assume all this happened because Yu-gi-oh and pokemon became pop culture hits and nobody expected them to be so successful back in the day.
There are also other franchises and anime series which have their own Trading card games, those are not so popular having less value in the collectible market as a consequence.
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Sometimes the value of one item can increase not because of its age but because of its rarity and if there's only a limited copy of it. Maybe the one you saw before are not original cards, that is why it's value is only cheap but fake cards does not matter for a kid that only wants to play the game.
It only matters the most from those who collect it and those who buy and sell it for a much expensive price. Those people know how to identify an authentic card from the fake ones. For someone who don't mind if what cards they will get inside the box and will actually value all the cards then it's not gambling but I think they will find cheaper alternatives.
I mean, the card I mentioned I saw them around 2000, when I was a little child. Those boxes which are worth 45k$ today back then were quite common.
As time passed by and those boxes started to get opened or lost (also with the popularity of Yu gi oh) the price started to increase very quick.
Nonetheless, you have a fair point tho. If one is a collector one needs to be very careful with counterfeits, since the first editions were printed during the early days of their franchises it is likely the material and anti-counterfeit measures of the cards back then were not as good as the card printed today, making it easier for the criminals to counterfeit...