pip-1.4 does prevent that now (released last week)
but you specifically mentioned the linux distro name, "python-distribute"?
I'm guessing maybe you're concerned with the scenario of how upgrading some project (that depends on setuptools/distribute) forces an unintended upgrade of distribute on a system where distribute is system-managed.
Is there a link to a tracker issue for that somewhere?
but on 2nd thought, this is not a new problem. this would always been happening, just not involving a transition to setuptools.
so I imagine, your concern was just the "Import" error?