The key is to have paper ballots in a format such that two or three completely independent means of counting can be applied. If the paper ballots have a standard format, with standard locations for the little ovals, then several different kinds of scanners, with different software, can be used. In all cases, human auditing is necessary. And manual recounts in front of lots of witnesses must be the final mechanism for disputed elections.
In Florida today, after a ballot has been scanned, it is basically illegal for a human to ever look at it. That completely defeats the purpose of the paper ballot -- which is to be audited, and manually recounted if there is any dispute.
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