VueScan actually has TWO 64-bit RGBI output options -- either a normal TIFF or a "raw" TIFF. So I just tried scanning a slide and saving it in each of these formats. In Windows Photo Viewer, the raw TIFF looks darker than the normal TIFF! I did some searching around...
From https://www.hamrick.com/vuescan/html/vuesc33.htm:
The image gamma value is 1.0 when there are two bytes (16-bits) per sample, and 2.2 when there is one byte (8-bits) per sample. Raw files saved with gamma 1.0 will look dark, but this is normal.
From https://www.photo.net/discuss/threads/r ... ed.447117/:
Vuescan RAW is just a non-inverted tif file with gamma equal to 1.
The gamma change seems to explain the difference in brightness, as well as the difference in the compare metric, fmw42. (So probably nothing to do with my exiftool commands.)
Now, if I import a normal 64-bit TIFF into VueScan, infrared clean works, except it looks kind of funky because the image is too bright. If I import a raw 64-bit tiff into VueScan, everything is perfect.
So what about my hundreds of archived two-layer TIFFs? Both layers were outputted as "normal" TIFF files (one 48-bit RGB and one 64-bit RGBI). This means the gamma is probably off for all these files -- that is, the second layers of them.
This means the raw-from-vuescan.tif file we've been using is irrelevant, because none of my archived files are "raw." (And I think this caused us some confusion.) Now it looks like I need a way to take the second layer of multipage-with-imagemagick.tif and fix its gamma so it is the same as it would be in a raw file. This would (I hope) solve the problem.
Here's a fresh scan. They are both the same image outputted directly from VueScan.
64-bit RGBI normal TIFF: https://drive.google.com/file/d/0B9eUF3 ... sp=sharing
64-bit RGBI raw TIFF: https://drive.google.com/file/d/0B9eUF3 ... sp=sharing