It's not really a tmux issue. You can demonstrate it just by invoking
a shell.
For example, if you "cd /tmp" and then invoke a new shell with
"bash -l", the code in /etc/profile will cd to your home directory.
(This doesn't happen on Ubuntu, for example, which has a
different /etc/profile.)
But if you invoke bash without "-l", or with "CHERE_INVOKING=1 bash
-l", the new shell will have /tmp as its current directory.
"chere" is a script, installable via Cygwin setup, that enables
opening a Cygwin terminal in a specific directory via the Windows
Explorer context menu (right-click). I haven't tried it myself yet.
Here's the relevant code from /etc/profile :
# Make sure we start in home unless invoked by CHERE
if [ ! -z "${CHERE_INVOKING}" ]; then
unset CHERE_INVOKING
else
cd "${HOME}" || echo "WARNING: Failed attempt to cd into ${HOME}!"
fi
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