I opened a support ticket with ACF and am still awaiting a reply. If I hear anything on this topic I will be sure to share. I am experiencing the same issue that when I check a box for a taxonomy my entire meta box disappears. I noticed that somehow the JS is adding a hide class to the meta box after the taxonomy selection.
I am a dumbass.
Here is what I did
use the conditional as the determining factor as to what should be built and then create a bunch of if and ifelse statements to switch based upon the option selected.
