Interesting. I don't interpret their stance so much a flip flop as just the usual tactic of using vague and misleading speech so that they can later place the blame on the rank & file for misinterpreting what comes from above.
I do recall when i was a kid our city held a plebiscite on water flouridation. My mom was extremely against it and wanted to vote. She went to the elders and they basically gave her permission - told her it was up to her conscience, but that voting on something like a plebiscite affecting one's health was not the same as voting on a political matter.
Most voting legislation I'm aware of states that it is illegal to destroy or deface a ballot, so they are really instructing their members to break the law.