I'm prepping to upgrade from 3.4.4 to 3.4.6, using the Juggledad method described here

I'm grabbing my code additions to the header and footer (trackers/ads).

Will an upgrade preserve my sidebar widgets, or will I have to re-create them?

Not a big deal, but there are enough of them that I'd rather skip it if it's unnecessary.

Thanks

the widgets should be fine. All the options are stored in the database whch is not effected by a theme upgrade.