OK, I'm an old fart with an '05 S also, but...
You are going to drive your service manager to drink.
Clutch - Have you ever driven a non-syncro transmission?  Forklift?  Duece & 1/2?
Rubbery shifter - Huh?  Driven a '50 Chev?
Stereo - pull the fuse, concentrate on driving...
Throttle hesitation - Push Down Harder.
No room for owner's manual - you're driving ME to drink.
 :ah: 
Now I feel better, and back to the business of sucking the headlights out of Harleys