Did that work for you?
It was also messing up all the display of the configuration items in Admin for me.

NOTE:
We wanted an extremely streamlined site and I have to admit I've done some serious modifications to the Classic template.
For the Checkout Page I used a combination of CSS, the original Classic and fec checkout page templates to get the look I needed. I didn't necessarily need the split page. You could retain the fec split page and do your alterations in CSS

We don't take online payments and we only ship UPS that's why those options have been removed.
Basically I turned off all payment & Shipping modules except Money Order and Flat Rate with some additional mods to CSS & the code to not display those items on the checkout page.

Attachment 13419