I did the same stuff when I first started reloading...nit picked primer pockets, case length, weight sorted brass....eventually I concluded that both the gun and unworthy ammo were still better than me. What dies are you using and who's concentricity gauge? I have a Hornady, it is a nice gauge. Deviation in neck wall thickness will show up on a concentricity gauge also. I have had my best loaded ammo check out off of my Forster BR die set. I consistently get better than .002" with no special procedure. All of my other dies are Lee, they make nice rounds too but usually get run out of .002/.004 area. Since switching from a Lyman turret press to the Forster Coax my bullet run out got better...to the point to where I got tired of checking them, so the gauge just sits. Hard case necks seem to be the culprit of neck run out too...like it bends the case pulling the expander ball through. Annealing and the above changes have helped me out. If I was trying to win a match at Williamsport I could get bushing dies and try to get the best neck run out and perfect tension but there is no need for it in my eyes with what I am doing. I have a 5 year old and my time reloading is getting limited so I quit being so particular...lol. Good luck tinkering.