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I think this may be a package update issue? I just tried a new installation on a Mac and it seems to work fine.
R version 4.3.1 (2023-06-16)
Platform: x86_64-apple-darwin20 (64-bit)
Running under: macOS Monterey 12.6.7
Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/lib/libRlapack.dylib; LAPACK version 3.11.0
My version of R is slightly newer, so that may be also worth trying. For packages, I'd update everything -- but Stan/StanHeaders seem like the obvious ones that could be causing issues.
Related, I also started working this up in TMB -- which may be a good solution for some of the giant datasets you're working with. This is still very much in development, but available here: https://github.com/noaa-nwfsc/zoidtmb
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