More recent research has shown the phyto-estrogen compounds in Soy do NOT convert to the equivalent human estrogen...nor does it lower testosterone.
However soy seems to give a lot of people a bloated feeling.
Thus, I don't run away from soy, nor do I seek it out. I occasionaly have morningstar breakfast crumbles in my eggs..but I've never bought soy protein powder, milk, or relied much on soy for my protein source.
If you're lactose intolerant, soy milk might be a good choice on your breakfast cereal...but I'd still use a lactose free whey/casien blend for my primary protein supplementation.