Not once did he advocate not screening pilots, did he?
http://www.schneier.com/essay-304.html http://www.schneier.com/essay-245.html http://www.schneier.com/essay-299.html
Security in airports is already much too high, too annoying and too costly. There must be a point when it stops getting tighter and tighter. It won't catch the next terrorist anyway. We need a better use of resources and people (better than taking away mineral water bottles, and full-body scanning everyone and his dog).
But I'm still not seeing him advocating not screening the crew. And how could he advocate something like that.
It would be like him saying "use strong encryption to protect your information, but make sure that passwords are written on post-its so it won't get lost".
Scanning people shoes is useless. Full body scanners are useless. As the pilot said, what will they do when someone try to blow up a plane with dynamite in his rectum? Rectal check for everyone? This is absurd, expensive and serves only one purpose : covering TSA officials' asses.
See for instance some of these: http://www.schneier.com/essays-airline.html