To the OP I have a question about what you are using to judge. I understand that you said you have had many PRS guitars etc and that the scheter and fender supposedly sustain just as well..... but did you really A/B it?
I only ask because in the past my memory has reallllllly played tricks on me when I have feelings like these. In the last 3 years I have gone through 8 different Mesa Amps, 2 Orange amps, 1 marshall, 1 line 6, 2 Kranks, 7 PRS guitars, 14 Ibanez, 3 Fender, 1 J5 squier tele, 1 Gibson Standard LP, 1 Gibson SG with EMG's, and I wont even get into gear...I've moved a lot of junk in a mad search for "the" sound lol. (also seems like a lot of work when I type it out)
First I've never seen a Fender sustain the way a custom PRS does. Duration? hmmm maybe, but they do not hold notes the same in my opinion. Not that either one is bad sounding, but its just different.
So are you looking for duration? are you just holding a note to see? are we bending the heck outta it? are we plugged in? do we have a lot of gain? I guess in the end the difference is pretty small so we just grab what sounds good and is important to us?
Sorry for all the questions, but I think as someone else did mention there is a ton of variables once you plug in nailing it down is very hard to do. I've been trying to retire my main PRS for some time. All those PRS's came in this last year....I have yet to find one that sounds the same. I often wonder if it is just the wood.