Zero has a dealer service kit they send out. Kit has a net book with support software loaded and a number of custom interface cables.
When my board faulted they gave me the option of either bringing the bike to a Honda or Yamaha dealer (and they would send the support kit there, and I would be bikeless for probably a week) or to me directly, and I could swap the board.
If I had a nearby Zero dealer, the latter probably would not have been an option. My nearest dealer is in Atlanta (~180 miles away), getting the bike there would have involved significant expense.
Hmm. I assume you contacted Zero directly?
My dealer is also about 200 miles away, in Austin. I've hauled the bike there once already for a fork seal issue. I do have a pickup to transport the bike, but I have to arrange with the dealer to get it turned around in a day (which they graciously offered to do last time), take a day off work, and get it up there early (or go the night before and spend the night). Or I can bring it on a Saturday, leave it, and return again to pick it up, which is what I did last time. Either way it's not trivial, and is about $100-$200 in gas plus everything else (I have a free place to stay there, fortunately).
I'll probably take it up there again this time, since I've already been in contact with the dealer, but I'm thinking that in the future I might go the DIY route. Did you get to keep the netbook?