Emacs specific answer : As far as blogger is concerned, it allows inline css. The problem with javascript based highlighters is that you have to live with their color scheme or implement your own. But, like me, if you are a fan of your own emacs color scheme, you have a much better option available. I have hacked up the "htmlize.el" package for emacs to add the following four functions...
- blog-htmlize-buffer
- blog-htmlize-region
- blog-htmlize-buffer-with-linum
- blog-htmlize-region-with-linum
These functions will output copy-paste ready html (inline styled) in a new buffer in emacs, which you can directly use in your blog post. The output looks exactly same as you would see the code in emacs (including the color scheme).
Here is a link to my blog, where you can find detailed information of how to use the "blog-htmlize.el" with emacs. This does away with html-encoding the "less than" and "greater than" signs also. And as emacs is doing all the highlighting and styling, you do not have to worry about whether the js library supports the language of your snippets, nor do you have to meddle with your template code in blogger.
You can find the elisp file here (save the file as blog-htmlize.el)