OK so I got it to work 100%.. and this is how
When exporting to HTML I set the folders as follows:
I then uploaded the games folder to the root of my Joomla host. I also uploaded jquery-1.7.1.min.js, c2runtime.js and logo.png to the Joomla root.
I edited the c2runtime.js changing all occurrences of games/ to ../games/
The body section of index.html I pasted into the required Joomla article using the sourcer plugin.
So that I could add more games in future I renamed c2runtime.js to c2runtime-sc.js and updated its reference to such in the article body :-)