The hop flavor and aroma should definitely fade somewhat, but if you find it too be too much now, you'll probably still feel it's too much later. As much as I love hops, I really don't care for hoppiness in stouts all that much, so I generally just add a bittering addition and leave it at that.
As for being too thin... has it carbonated fully yet? Flat beer can give the impression of a thin and watery beer. If it IS fully carbonated, it is, in all likelihood, an issue of mashing at too low a temperature. I would have done this around 155 degrees, if not higher. If you think you did, I would check your thermometer to make sure it's accurate. Now that it's in bottles you probably don't want to add anything to them, but maltodextrin or lactose are both good unfermentables that will add body.