Spreadsheet I put together.
Shiga Kogen was excluded, because it seems more like a collection of different ski areas some of which are not connected by lift/slope.
Kagura and Joetsu Kokusai look good on paper (stat-wise) due to their layout, but it seems to me that they're actually smaller resorts than their stats suggest.
Zao, Nozawa Onsen and Happo-one seem like Jpn's big-3, although there's probably no concensus on that.