If write-ins aren't permitted at all then none of them should be counted and that should be the end of that. That is not a ridiculous bubble technicality such as others are attempting to defend. That is a serious irregularity.
Since it's a runoff between the top two, there shouldn't have been a write-in at all. I wondered whether the Frye ballots should even count as votes at all, since they have neither official candidate marked.
Since the SD city charter requires the winner to have 50%, and Murphy has only 34% with Frye and Roberts splitting the rest, it appears nobody qualifies to be mayor unless Frye's votes are equivalent to blank (nonexistent) votes.
In a yes/no election, if you punch the 3rd chad, does that count toward the total votes for that question, or do only the yes and no votes count?