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Victor suggested making these errors be reported by the finalize method (garbage collection). I started investigating this, but faced various test suite failures (test_io, test_curses), as well as many new unhandled exceptions printed out during the tests which do not actually trigger failures. Maybe this could become a worthwhile change, but it needs more investigation and wasn’t my original intention. Finalize-exception.patch is my patch so far.
There are many comments over the place that make me uneasy about this change, so I think it should be investigated separately. E.g. Modules/_io/iobase.c:
/* Silencing I/O errors is bad, but printing spurious tracebacks is
 equally as bad, and potentially more frequent (because of
 shutdown issues). */
Lib/_pyio.py:
# The try/except block is in case this is called at program
# exit time, when it's possible that globals have already been
# deleted, and then the close() call might fail. Since
# there's nothing we can do about such failures and they annoy
# the end users, we suppress the traceback.