When updating packages today it looked like a bunch of MATE packages (though not any of the Antergos caja- ones?) got updated. I removed the libexempi symlink workaround, updated, rebooted, and everything looks fine - it seems like the workaround is no longer needed.
Anyway, glad this issue seems to be fixed!
I wonder how you actually removed your symlink!? After reading your comment today I unlinked my symlink like this:
sudo unlink /usr/lib/libexempi.so.3
and had the same blank desktop issue with Caja again. My system is up to date.
Cause I am new to Antergos I wonder if I did something wrong?