Jason, here’s a sort of similar question - though when I first checked i didn’t have the ~/R/%v directory so I didn’t stumble upon issue this until now.
I am able to replicate by adding R_LIBS_USER to my ~/.bashrc so I suspect this is a little on us here where maybe it’s a bash evaluation thing? or maybe the --r-libs-user arguement is broken in RStudio and if we just had the environment variable set it would work better? I’ll test the last bit out now.
In either case, I’ve use ~/.Renviron with a lot of success. Of course the onus is on the user to have that file, but it removes bash from the equation.