Hi, I bought a used JTV-69S on eBay. It must have been one of the early ones to be sold, because the "E" strings really liked to go off the edges of the fingerboard. I also found the width at the nut, at 41mm = 1.615', to be a little too cramped for my fingers, so...

I ordered a Warmoth neck: Stratocaster Vintage Modern, 3A flame Maple one piece fingerboard and neck, 1-11/16' nut width, right handed, Standard thin neck contour, 10-16' compound radius neck, fingerboard lenth = 22, fret size = SS6105 (stainless steel), tuner hole size 13/32 = 10.32mm (planet waves), fingerboard inlay of Arizona Turquoise stone dots, Black dots for side markers, Graph Tech TUSQ XL nut, standard 4 bolt mountiing holes, and vintage tint satin nitro finish. My reasoning for some of my choices: the Stratocaster neck fit the body of the JTV-69S perfectly (No modifications needed). My Martiin and Gibson have 1-11/16" nut widths, which I'm used to and fit my finger tips, so "Make it so", for my custom neck. My MIM Stratocaster neck fits my hand comfortably, so Standard thin neck contour is for me. The 13/32" (Planet Waves ) tuner holes are a perfect fit for the tuners that came with the JTV-69S. Standard four bolt pattern holes pre-drilled into the neck (others have written that three of the holes line-up perfectly, but only two lined up for me). The other features are more influenced by personal taste than anything else, so are not discussed. After waiting four weeks for it to arrive: I scored the edges of the fret wires with and exacto knife blade and scraped off the nitro finish that was sprayed on them at Warmoth. I did the same with the Turquoise dot inlays in the fingerboard. I put the neck on the body of the JTV-69S and screwed in the two bolts that lined up perfectly. I used a 4mm brad point bit to mark the holes that needed to be drilled. One of the holes was too close to one of the pre-existiing holes, so I filled it in with a 4mm dowel and some wood glue. I drilled the two holes with a drill press and put the neck on the body. There was no side to side play between the neck and the body, but as I found out later it didn't matter. I put the JTV-69S tuners on the Warmoth neck, carefully lined up the tuners with a straight edge and marked the little 1.5mm holes that needed to be drilled, on the drill press. I had to use a little bar soap to lubricate the screw threads to get them in. I put the strings on, tuned them up, and that's all that was needed. Yes, the nut could be filed down a little bit better, the edges of the frets could be rounded a little bit more, the truss rod could be adjusted for a little bit lower action, the intonation could be a little bit closer to perfection, but the guitar plays fine just the way that it is. I'm totally happy with the guitar. I probably will eventually tweak all of the aforementioned, but, because I have the tools and the inclination more than out of necessity. I'll admit that I really splurged on the neck. I could have gotten a much cheaper neck, but why not get a beautiful neck? I have the money and I'm going to be looking at and cradling that guitar in my arms for thousands of hours.