Yep. Way too soon IMO to start talking about a neck being defective when it's never even been assembled. Honestly, it's hard to tell much of anything on a neck that has never even been installed or put under the tension of strings.
When I'm assembling a new guitar all I do is tighten up the truss rod (the main truss rod, not the SAM) until I start to feel resistance, then assemble the guitar. Once it's strung up I make some evaluations by playing it, and continue adjusting the bridge, saddles, and truss rod until things feel very close. Once things are almost perfect I start making fine adjustments with the SAM. Please note that at no point in this process have I measured anything.
Also note: the SAM should not even be touched until the guitar is assembled and the neck is 95% of the way where it needs to be already.
I'll also add that the feedback I get from actually playing a guitar trumps all the feedback gathered from rulers, straight edges, fret rockers, feeler gauges, and digital calipers. I guarantee that if I took these instruments to some of my best playing guitars I would find all kinds of "issues". But the fact that they technically exist doesn't keep them from being my best playing guitars.