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2. Just ride it 'Normally'. Don't lug it, don't thrash it.
"Cold start" issue has nothing to do with the bike firing up. If the bike isn't allowed to warm up a couple minutes, it stalls when you engage the clutch while taking off in first gear. I'm assuming your '16 Stone is a V7 II, so it should already have the updated map.
but I'm more worried about the times I've accidentally slipped past 5k, briefly but it's happened. Am I in trouble?
Sorry, let me clarify: I know how I should be riding it, but what I'm saying is my crappy skills and lack of familiarity with the bike have caused me to operate it less than optimally on occasion, all accidental. Also, what is an optimal RPM range for "cruising"? Where should the tach be the majority of the time, optimally? And, how likely am I to burn out the clutch from "playing the friction zone" too much, or is that not even a concern?