It's face validity but there shouldn't be a difference between bolt on and set-neck constructions. It's psychological bias, because it's different.
The different sound/feel is caused by a bunch of different factors: Strings (age, action), scale, fret number and position of pickups, pickup and it's height, cable lengths in the guitar... And wood specification is of very minor influence.
We believe urban legends by editors of guitar magazines, who trade their assumptions as truths. It was copied and copied... They 'believed'.
But wrote contrary behaviour on wood, one said it sound bright, an other it sound warm, a third finds more attack... What is the actual behaviour?
Results of scientific research for more than 30 years on electric guitars by Prof. Dr. Zollner lead to clear action and reaction ratio.
Even the knock on wood is false friend: An electric guitar is not a percussion instrument, it's a carrier of magnetic reactive parts (strings) in (a) magnetic (fields) of (a) pickup(s). And all parts of the circuit (and specs of the pickup(s) likewise inductivity, magnetic field area, etc.), distances and metal mass (gauges) have relevant influence on the electric sound. But neither wood, nor the neck joint. The would shouldn't (physically) resonate, because that will reduce our all beloved... sustain.
At least - for us players: Is the guitar by it's look (brand name, model name) attractive to us, we'll give it a first chance, is secondly the haptic feel and ergonomics right for us, first ties are bond, do we like the overall sound, it will be ours.
(I don't contradict, that I was on the wood train and neck joint train aswell in the past, but I stepped off - and guitarist life started to be easy.
And believe me with my collection of different guitars (with set-necks, bolt-ons, full maple, hollowbody with sound block or Trestle bracing, stoptails, Bigsby, double locking vibrato sytems, two point or six point vintage vibrato system, maple neck, mahohany neck, rosewood neck, carbon fibre reinforced neck, maple fretboard, ebony fretboard, rosewood fretboard, carbon fibre fretboard), it's better just to play and enjoy simply the moment with the chosen guitar.