I've found many intelligent atheists, and I'm sure that there are rational intellectuals out there who disagree with LW. But where are they?

If you mean rational intellectuals who are theists and disagree with LW I cannot help you. Finding those who disagree with LW on core issues is less difficult. Robin Hanson for example. For an intelligent individual well informed of LW culture who advocates theism you could perhaps consider Will Newsome. Although he has, shall we say, 'become more eccentric than he once was' so I'm not sure if that'll satisfy your interest.