"Make clickable" for modules is not working

This happens when you use the "wrong version" of Base Kit. Make sure you are using Base Kit from the Sections Kit Powerup. To check which one you are using, hover over the plug icon and it will same the name of the PowerUp being used.

How do I get my font sizes to match the Thinkific sections

You can try adding this code to your site footer code settings (this is global for all pages). or put in a Swiss Embed section (just on that page)

<style>
.powkit-loki .section-body{
line-height: unset !important;
font-size: unset !important;
}
</style>

How do I get the "container" size to match my Thinkific sections?

You can try adding this code to your site footer code settings (this is global for all pages). or put in a Swiss Embed section (just on that page)

<style>
@media (min-width: 1200px){
body .powkit-loki .container{
max-width: 1200px;
}
}
</style>