I couldn't agree more about the use of autobrakes. I don't think our SOPs even mention the possibility of not using them.
It is an issue of airmanship that is even more important with the reduction in experience in the cockpit because there are Captains who rarely, if ever, use manual breaking and FOs who have never even contemplated it.
Except in the very marginal conditions mentioned in that early Boeing report, I think it is sensible practice to use manual breaking for customer comfort and brake wear reasons, but more importantly, doing so gives the pilot a feel for how much force is needed on the pedals in order to achieve a certain rate of deceleration.
May I also say, with some shame, that there are many FOs approaching command who rarely use manual brakes, which is a serious issue of airmanship when one considers that it will be down to them to stop the aircraft on the runway when they have a tech problem (God forbid) in marginal conditions.