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Homomorphic encryption is one of the two main structures for e-voting protocols, but the encryption part is not the whole protocol. What homomorphic encryption does well is tallying. In such a system, each voter encrypts his vote (a zero or a one). Since the vote is encrypted, it can be managed rather easily: there is no problem in associating the vote with ...

You are right, the problem with e-voting is validation, not encryption. One can change values on the fly prior to encryption. What is important is the ability to check the votes after the fact. Scantegrity has this all worked out, they use a one-time-pad to assign a code to each candidate that is unique to each ballot. The codes and ballot numbers are ...