@rom Wow, thanks for trying out my plug-ins. 🥰 There's no easy way for plug-in developers to automatically inject links or make other changes, as every theme is unique. I would have to develop and maintain patched templates for every single Micro.blog theme out there.
In theory, theme developers could deliver their themes with built-in support for my plug-ins. And that's actually a thing now, @pimoore's Hitchens theme is the first that comes with built-in support for Conversation on Micro.blog.
For other themes, though, an installation step is needed for the links to show up. In the directory, below the plug-in's description, there's a link to the documentation on GitHub. Or just follow these links to the documentation for Conversation on Micro.blog and Reply by email.