juan tomas was a good person? why?

He loved his brother and tried to give him the best advice possible.

Juan Tomas tell Kino that he has defied not only the pearl buyers, but the whole structure of life, and he fears for his brother. Juan Tomas warns him that he treads on new ground. Juan Tomas reminds Kino that his friends will protect him only if they are not in danger, and tells him "Go with God" before he departs.