I have a original Arcade Cabinet For This, and I was wondering if you could make a Separate Speedrun For It. If Not, What should I put my run under?

Exactly, this leaderboard is only for NES version and arcade version is completely different game with completely different code lying under it. As far as I see, there is no leaderboard for arcade version, so you can request it here: https://www.speedrun.com/requestgame and you have to provide proof of your run for the request as well.