Presumably there is a lot more the NYT didn't report because it was unsubstantiated. You don't write these kind of pieces against someone super powerful for no reason.
I agree there is a lot they left out, but as I posted elsewhere in this thread, I think the Times actually went extremely lightly on Bill Gates. It read to me like his PR team authored it. Seems almost like they are trying to get ahead of some new information that may soon come to light.