Shape 5

It appears to load the green background then the /templates/clarity/images/backtop.png over top of it.
And the second repeat doesn't  seem to have any effect at all. If you go to www.paragonvoip.com/reseller (http://www.paragonvoip.com/reseller) it doesn't even continue all the way to the bottom of the page. Shows that green I mentioned above. Also logo shows box corners on the top right and left of logo but not on bottom? .png has transparent background. 

Hello,

There are two backgrounds for the template one that repeats horiztonally from top to bottom depending on length of your image:

Top Horizontal Background

And the second one just repeats throughout the entire background:

Body Background

I recommend placing your background on the second one.

Regards,

The second one seems to have no effect on the site. I changed it how you suggested and now i just get that green that appeared to be behind. Also bottom_row_1-4 positions are not in the drop down. They show up in the positions page?

Anything on the logo corners?

I checked your site and in the source I don't see any images referenced in the backgrounds?

I'm not sure what you mean by bottom row positions in the drop down.

The logo needs to be edited as it includes those corners.  I saved and checked it in photoshop.

Sorry I think I grouped everything together.

1. Here are the settings
Highlight Color : 4ecdf0   
Background Color : none
Top Horizontal Background : none   
Body Background : templates/clarity/images/backtop7.jpg

If I move templates/clarity/images/backtop7.jpg to top horizontal the background appears but over the green, where is the green coming from? If you look at some pages it shows at the bottom?

2. The bottom_row_1-4 positions that are on the template positions page do not show up in the modules edit position drop down. They are missing?

Now that I looked at it, it's missing other positions as well. Like above_body_1-3??

The green is coming from the background color in your template parameters area most likely "185564"

The positions won't show in your site modules drop down if nothing is published to them, you have to go into a module and then you'll see them in the drop downs.