Brazwell,
I've been lurking on both threads.
Have you actually disassembled the top end and done the detective work to be absolutely sure you didn't miss something or a PO hasn't buggered the threads in the cases? I'm sure the most experienced engine builders here (of which I ain't, but I've done a few) will own up to overlooking something minor once or twice that has stymied progress and required backtracking. I've used APE studs (and other parts and machining services) on two builds without issue and haven't seen a post here concerning an issue like yours. Not trying to sound like their cheerleader, but they kinda know their binness. A bunch of numbers have been thrown at ya- whip out the measuring devices and use them. I've also read nothing about your build that may provide clues, as you likely didn't tear yr engine down just to replace the studs... What thickness base and head gaskets are you running? Dowel pins have been mentioned. Pistons too tall and at TDC (had it happen, but only .013")? Tensioner hung up? Cam chain guide mislocated? Just throwing ideas out... I have bare K3 cases and'll be happy to throw a depth gage in the case threads, if you want to compare. As far as Cycle X or Kibblewhite studs- I'd throw my brain at this problem before throwing more dough at it.