When starting lemonsync I wee something like this..
macDaddy:lemonstand howard$ lemonsync
🍋 Connecting to your store (https://rooster-bagel-co.lemonstand.com) ... 🍋
10 new store file(s) were found.
Do you want to overwrite your local or remote files?
Type "local" to overwrite your local theme: /Users/howard/Repos/rooster/lemonstand
Type "remote" to overwrite your store's theme: rooster-dev-howard
Hit <enter> to begin watching for local changes.
It would be helpful to see the 10 store files mentioned before having to decide whether/how to overwrite.