Matt --
Web Optimizer doesn't parse jdoc tag. It hadles only raw (X)HTML.
> I can confirm all the css files are being put into a single file, however
> now that the js files form the jdoc are there, these don't get combined into
> one... Javascript cached file.
I suppose that some scripts are included in template and some have
been added by modules / system. If you want to let Web Optimizer
combibe all scripts -- please include them into the template.
> When I added the same 2 lines from the jdoc, these are also removed..
Please write what lines exactly have you added -- and what output you
saw. It's really very hard to understand 'what' are you doing to get
'something'.
> Can you explain what the following options do, I have the first 2 checked.
I think there should be an interface bug with settings... 'Include
merged JavaScript file before </body>' should override 'Enable
unobtrusive JavaScript' -- so it shoud be radio buttons, not
checkboxes there...
Unobtrusive JavaScript loads all required JavaScript calls after
onDOMLoaded event (crossbrowser) -- it's supported by small JS
library, YASS. So all your heavy client side logic can be delayed to
the moment it's really required -- when content is ready.
'Include merged JavaScript file before </body>' -- just includes the
final merged JS file before </body>. Maybe all of your scripts are
moved before </body> if you have checked this option? Can you please
check.
I think thre will be a complete article about Web Optimizer settings
in English. Right now thre is only one in Russian
http://webo.in/articles/habrahabr/96-web-optimizer-settings/
It can be translated via Google Translate into:
http://translate.google.com/translate?prev=hp&hl=en&js=n&u=http://webo.in/articles/habrahabr/96-web-optimizer-settings/&sl=ru&tl=en