I agree with most of what you state.There is no $64,000 question... because there is no single answer. Yet some seem to think that at best it's inconsequential, based on who knows what.
My point in setting up the experiment was to get you to really take into consideration what's going on with your instrument. The answers are in there, along with playing variat ions and really listening to what's happening.
One thing that can help is playing instruments minus effects or EQ tweaks or heavily voiced amplification. Many don't do this and draw conclusions in spite of it.
However, when trying out an instrument, I play it acoustically - never plugging into an amp until I'm done examining it thoroughly.
My rig is heavily voiced, but I always have the acoustic tone in mind when I start. I've tried maple fret/fingerboards multiple times, but the sound they provide isn't what I'm looking for. I'm sure I could EQ it to something more to my liking, but I always start with the acoustic tone that I desire, and build up from there. Tone is based on everything that you add or subtract, whether it's your fretboard, body material, pickups, strings, bridge, effects, amp or cab. It all plays together to create the sounds you want to hear.
Some believe that even if there is a difference, that it's not something that the audience would notice. That's irrelevant to me: I notice, and as my harshest critic, that's who I need to please first.