Snapper,
Ive often wondered the same questions. WDFW has stopped stocking hatchery fish up there. THe only ones ive ever caught up there have intact adipose fins. Since hatchery fish have a very poor reproduction track record i'd say that those fish have no hatchery genes.

Reasoning: Wild fish school up below the falls. Truck comes and scoops them up and turns them loose in upper river where they utilize miles of river creating a bigger and healthier wild fish population.

All salmon species are found there too, and to my knowledge they are wild fish. Ive never seen smolt plant numbers from the S.Fork since the 80's.

Maybe someone else has some knowledge on this..?????
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"I have a fair idea of what to expect from the river, and usually, because I fish it that way, the river gives me approximately what I expect of it. But sooner or later something always comes up to change the set of my ways..."
- Roderick Haig-Brown