Suggestion: split Save button into Save (on last file) and Save as (new file) button.
Currently, the app remembers the file name but not its path, and will prompt for the save path on every save. If you don’t put your project in the default folder (the app folder), you need to reselect this folder each time.
A button that saves the project in the current/last path, as in other apps, mapped to Ctrl+S, would help. On first save, it would act like Save as.
Then the current button would become Save as with a different icon, and mapped to Ctrl+Shift+S.