Hi!
The CSS is currently put in the <head> of the DOM towards the to override Genesis and plugin styles. They are broken down into the sections that are in the customizer.
If you want to fine tune some styles without editing your theme, I would suggest just adding the changes in the Scripts section of the Genesis Settings. Most the Super Customizer styling is only specific enough to override the Genesis default styles. If you add an extra class to the style or append “!important” to it, it should adjust to your customizations.
FYI Super Customizer already has a logo shrink functionality built into it on the header settings ?? Just adjust the Shrink Size to something smaller than your Logo Height in the Header Image settings.