I'll point out that any discussion about keeping the vote totals secret until after the vote will need to include admins explaining why that option can't be selected in polls. At this moment, I literally am unable to select that option, so the Ecclesia can't legislate something the Citizen-Initiator can't do.
It's a technical issue rather than anything deliberate. That said, I'm checking the permissions for the Ecclesia board right now and you already have the full range of board permissions for polls, both your own and other people's, so I'm not sure why you can't select that option. I'll look into it. Eluvatar may know more than I do.
As to whether we should do it, as has been pointed out before Admins can still see the votes regardless of whether or not the option is selected. This struck me as unfair so I never used the option so that I wouldn't have information I could use to decide my vote that others didn't.
As for whether votes should be anonymous, I think they should be for elections to prevent hurt feelings, but for legislative votes I agree with Myroria. The Ecclesia is a legislature and our legislators should stand by their votes. If they're so easily swayed by the opinion of another hiding who voted how won't change that, since people can still publicly endorse a position and urge people who respect them to vote the same way.
As for the rest of the proposal, I agree with the content, though some of the language could maybe be tightened up to be clearer. Two things I think should be added is a period between when a motion for a vote is made and seconded and when it goes to a vote, during which the motion can be withdrawn if a mistake is found in the proposal. It's not a common thing, but it happens, which is why I always allowed a day or two.
Second, I think it should be made explicit how ties in elections are broken. I always used the standard of whoever accepted their nomination first, but there might be a better way to do it.