If memory serves me right there is no difference whatsoever with the game. It's the exact same game. All the special edition add was a music CD with 80s tracks on there. I don't think it's worth owning the SE just for the music CD, but I'm not the hardcore collector.
you want the music cd? 5 cents , lol.. i wish i lkived in japan where their special edition, means getting cloth shenmue bedsheets, t-shirts, baseball hats, a story book and a live standup ryo hazuki action figure.. lucky easterners