Wow! I don't know what's more amazing ... a question about a decade old post, the fact that the monastery is still here after ten years, or that I'm still here to answer it.

The problem is GPG has not been updated in a dozen years but gpg has. Looks like the underlying options to the gpg command

  --batch --no-comment --no-version
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 $this->error($error) and return if $error;
  return $output;
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So ... the real solution is to use a newer module (maybe GnuPG -- but I haven't really looked into it). But ... if you're feeling hacky, you can always modify GPG to use the --quiet option and that should prevent information on STDERR from blocking the decrypt.