I'll answer your questions as far as the bass, and esox are concerned.
If you're going to tie up some rabbit strip flies for bass and pike, I'd stick with a size 2-1/0 hook. Barry Renoylds pike bunny is a very effective fly. John Baars Meat Whistle is another killer. Those are tied on 90* jig hooks. I've had some of my best largemouth fishing come on the Meat Whistle fly. I always recommend the Gamakatsu B10-s hooks for most of my bass bug hook needs. As far as I'm concerned, they're the best hook for the money out there. I've got around 3-400 in my collection right now. Just as there is no such thing as "too much sugar", there is no such thing as too many B10S.
Musky flies are usually tied with 2/0+ hooks, and 2/0 would be a small trailer. Most of mine are tied on 6/0 hooks, with 4/0 trailers if I'm tying doubles. I tie most of mine on Patridge Universal Predator X hooks, and Gamakatsu SL12S hooks. There are a variety of hooks out there that you can use though. If your target is truly musky, don't skimp on the hooks. They're hard enough to catch without having to worry about bad iron.
If you want to articulate flies, get yourself a spool of Beadalon from your local hobby store. There are plenty of youtube videos out there showing you how to articulate flies. I strongly recommend you watch Brian Wise's fly tying videos. They're great.
Our sculpins in the driftless are brownish-olive. Erring more towards olive usually.
I don't know jack about salmon, so that's on someone else.
Rabbit strips I'd recommend getting in the 1/4", or magnum size. They fit that size hook better.
I might have rambled a little bit in this post. It's been a long week, and I've had one drink too many I think.