Replicating a page.tpl Region in Omega's structure
I have solved this issue. 

I had to create a Zone. Then add the created Region to the new zone. I then created a zone--zonename.tpl.php file and within that i added 

&lt;div id="style-picker"&gt;
&lt;div id="toggler" class="closed"&gt;&lt;/div&gt;
&lt;div id="body"&gt;
    &lt;div class='section'&gt;
    &lt;?php print $content; ?&gt;            
    &lt;/div&gt;
&lt;/div&gt;

&lt;/div&gt;


after that all content printed within this zone will be wrapped within my divs and .js and .css files will be applied.

Thank you 2pha for sticking in there with me and helping me with my overall brainstorming =-) hopefully this helps someone else messing around with this stuff.