Peter,
I always bypass the eye itself and tie directly to the hook's shank. Some hooks have eyes that can actually weaken the line at the entry point so I tend to not thread my line through the eye. You can get away with tying heavier mono through the eyes but smaller stuff can get pinched and weakened really quick. I would prefer to actually run my line through the eye as it would give you an even better "in plane" strike when sitting the hook.

I use the Traditional Snell with all lines too, mono, flouro and braid. The smaller lines simply need more wraps and of course the heavier lines not as many.