Hi.
- I don't understand what you mean.
- Removing the doctor search bar shouldn't affect this. Perhaps you did something else. As far as I can see in demo template, the styles for these objects are in the template presets. You may have disabled the preset and are using custom color settings.

Tip: Commercial templates are designed to be used as is. You just change the content and that's all. If you need a lot of customization, then it's better to use the basic Helix Ultimate. It takes more work to customize the commercial templates. And of course you need html / css skills. With these skills, you could quickly fix 2 and 3.
Perhaps someone from the team will clarify questions 2 and 3 by gaining access to your site. I am not a member of the team. Just a user like you.