The class "joomla-script-options" is Core Joomla - If you rename or remove it, many front-end functions will no longer work. joomla.jtext is Core Joomla front-end translations. If you rename or remove it, any javascript that displays text will not display any text.
Both things you've pointed out are Core Joomla output. I use it in my extensions, but I didn't create it.
You might be interested in this article:
www.richeyweb.com/software/joomla/35-securing-joomla