My favicon works as normal on the main page of my comic. It also works fine on the "extra pages" i have, such as my about, archive, and so on.
However, when loading a comic page from the archive - with a url such as http://lamejokesrus.webcomic.ws/comics/9 - the favicon disappears. I'm not really sure why this is happening, nor do i have any idea how to fix it. I'm not familiar enough with the modular format of the code here.
The reason is that your favicon is referenced by a relative link that's relative to the current directory "./files/favicon.ico", so change it to remove the "." in order for it to be relative to the main directory instead like this "/files/favicon.ico".
In other words, by inserting that ".", it's saying find the file tree in the current directory, and on the main page it parses the .ico URL at "domain.com/files/favicon.ico" and then on the comic page it parses it at "domain.com/comics/files/favicon.ico".