Mutt only knows what mutt knows and anything else he scoffs at.
Nothing new there...that's old news, and he's not going to really debunk what I said, 'cuz he can't...he'll just scoff at it as he usually does.
The intonation method I mentioned earlier is not something I came up with...it's a legit method, and an alternative to the old harmonic/12th fret approach which can work in a lot of cases, but the alternative provides a sweeter tunning across the entire neck and minimizes the amount of needed as-you-play adjustments that Mutt was referring to earlier.
It does take longer to intonate with this alternative method, but I wouldn't be continuing to use it on the rest of my guitars if it was worse than the "standard" method or if it made no difference at all.
I can point you to a website that describes the alternative method....if you think it's just something I made up.

Try both...use what you prefer.
AFA the pressing of the sting to tune rather than doing the traditional open string tune....that's my own, though I'm sure someone else did it before me. That's just pure common sense, because when you press a string (as was already discussed somewhat within the jumbo vs smaller fret discussion)...it's going to stretch the string from its open string position, and change the tuning slightly...just like pressing too hard with jumbo frets.
If you play open a lot and mostly in the first 3 frets...tune with the open strings.
But if you're like me, and especially when playing electric, you are pressing on the strings 95% of the time....WTF would you want to tune to open strings for...?
And the other point, about occasionally fine-tuning for a specific range of the neck...well, that's mostly a studio thing, where you're going to lay down one track and play a specific set of chords/licks. If they happen all to occur say, between the 5th and 12th frets...press/tune your strings in that area and you will fine-tune for that.
This too is nothing unusual or weird....it's been done before I ever did it.
For overall playing, live gig playing....you certainly wouldn't want to fine-tune for a specific range of the neck.
Like I said, it's just a studio thing, no different than say tuning so that the 3-4 chords you may be using for a given song are as prefect sounding as possible relative to each other and the song...and not worry about chords in other positions that may be off, which you are not going to play anyway.
Say you're doing mostly minor chords on a track, all within a few frets of each other, you can tune more specific to them, and they will sound sweeter. Again...that's nothing new or rocket science, and it works better for some things than other....but occasionally it helps a lot if you want to get the best tuned sound on a track.
At any rate, take the time to try it all and if doesn't work for you...you don't have to do it...
...or you can avoid trying it and just follow Mutt's absolute/only approach.
Oh Mutt....the last couple of threads where you said I needed to get the last word in, you went on for another handfull of posts well after me....so I'll take this one, ...that is, if you decide not to reply.