The discrepancy occurs on sites with https enabled, this happens because frappe adds resources with https by default. In the builder app, there is a css reset that is already included in the html, but in this case the browser blocks it because it cannot be accessed securely with https. The reset file in can be found at http://[your-site]/assets/builder/reset.css.
For more information on how to fix it, please review this answer where you will find more details: