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I can reproduce this with a script that builds and installs a couple of python versions, annoyingly enough I don't understand why that code fails.
In particular, in my script the run of python that fails is started with this code:
 lg.debug("Run setup script with '%s'", python)
 pprint.pprint(os.environ)
 p = subprocess.Popen([
 python, "setup.py", "install"],
 cwd=distribute_dir, stdout=subprocess.PIPE,
 stderr=subprocess.STDOUT)
This prints the environment and then runs a setup.py script. What confuses me is that the printed environment does *not* contain MACOSX_DEPLOYMENT_TARGET while that is the only way to trigger this bug.