In the Rabbit (rev hang, terribly spongey mounts) option 1 is the smoothest.
In the CRX option 2 is the smoothest.
Assuming you're upshift rev-matching, I don't get why people think option 2 would be less wear on the clutch.
With 2 you're slipping the clutch with each upshift, which does it make it smoother (less shock from just releasing the clutch), but means more wear, no?
Leaving your hand on the shifter has absolutely nothing to do with the throw out bearing (if that's what you meant by TOB)...
If you do method 1 too slow (which I can only imagine you would be, if you're actually thinking about it) chances are the rpms drop way too much between shifts. When you let the clutch back out it'll slip all the way back to where they should be. Furthermore as someone else said, the engine braking will lead to a pretty sloppy shift.
In normal driving I only use the clutch when re-engaging the gear. If you dont load up the trans too much (no acceleration or deceleration) it pulls right out of gear without clutching in.
I've put 400,000 km on two different manual transmission cars and never had to change a clutch. The Jetta is going to need a clutch soon, but only because of the crappy DMF mechanism (which wears itself out regardless of what the driver does).