While I don't think he would deserve SOTY any other year, even perhaps the year he got it...
But since the question is phrased who had better skate years other than the year they won, I would have to go with Tony Hawk. He got the first SOTY in 1990, and had had many, many better years since then.
In fact, I would argue that Tony had had the most better years other than his SOTY year.
Opinions?