"P.S. federal agents, I don't use recreational drugs (anymore), I'm simply a longtime occasional reader of the SR forum... so please don't come kicking down my door."
Saying this will not make a difference. Given the general lack of consequences when paramilitary raids occur against innocent people, and the strong financial incentives for attacking people and seizing their property, you would not be safe even if you had never been near illegal drugs in your entire life.
If the goal were to do as you say, the FBI could have easily kept operating it as a honeypot. They did not, however, leading me to believe that the users of the Silk Road were not their concern and of little consequence to a law enforcement agency of that size.
I think most drug busts are incidental: discovered when dealing with another crime (someone questioned for robbery, domestic violence or erratic driving). Large operations like this, or even medium ones on the local level, are generally about busting large gangs and even then it’s usually the violence that brings those gangs into law enforcements crosshairs. The sheer size of SR -- and the political pressure -- made it an exception.