Automatic Alignment of Identical Audio Tracks in Audition CC Win 8.0

Hi, I'm working on a film project, and I need to replace every bit of audio from the camera.  I've got every track and take from my digital recording device, and my video editor has round-tripped the project to me from Premiere Pro CC.
My problem is that I need to zoom in on two tracks, down to the sample level, FOR EVERY SINGLE CUT IN THE FILM. Please someone tell me Audition can align two identical waveforms that are 99% of he way aligned to start with (one which has about 50% less gain and some noise).  NOTE: Auto speech alignment doesn't work.  (I've never gotten it to work properly for even the intended purpose. The artifacts, even on the lowest setting, are horrific.)
I'm tearing my hair out here and I make it through about a minute of the film every hour or so......
Help!
-SCP

Yikes!  I was going to send you straight to Automatic Speech Alignment which is the Audition tool to do exactly what you want.  I'm interested that you find it suffers from too many artifacts--I've not had that problem and therefore can't suggest any way to improve it--maybe a friendly developer will have some suggestions for you but, as far as I know, Auto Speech Alignment is the only tool designed for lining up tracks.
A few suggestion to help the manual method (gleaned from my deep distant past working with film then the early days of video).
First, if you're going for sample level accuracy you're WAY overthinking it.
Video is a frame based system--how many frames per second depends where you are and what format you're using--but your sound can't be in better sync than "to the fram".  At a 48kHz sample rate, this means that within 1600 samples amounts to "perfect lip sync".  In the old days of film, sound was actually transferred to magnetic coated 16 or 35 mm film and edited that way--i.e. accurate only to the frame.
Second, for the future, you might find it quicker to use an old fashioned "clapper board" at the beginning or end of every take.  This makes finding a sync point dead easy.  The other thing would be to sync up the external recorder BEFORE the editing starts so you can work in long, continuous takes rather than do a patch job later.  It's still manual but (especially if you have notes of the good takes and only do them) but much faster than doing it cut by cut.
I know the second set of hints really doesn't help this time but maybe in the future...

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