Understood on the first point, although your argument about Hillary is that any one of us would have been prosecuted for taking the same actions. Not applying that logic to many of the findings in the Mueller Report related to the obstruction issue seems inconsistent to me.
They ask about everything. They asked why I got a divorce over a decade ago. That wasn't going to bar me from retaining a clearance, but the question was asked. With respect to being charged or investigated for a crime, they are going to look pretty hard, and you are going to have to have good answers to tough questions.