Logo and Favicon Missing After update

Bear with me, I think I'm way over my head with this theme.
I opted out of saving my logo and favicon files as suggested. I know where they go and it was easy enough to ftp the files back in but it's not working. I pointed back to the default logo and favicon files and those will not show up either.

My site is http://refreshingthehome.com/

I have 2 sites that use this theme and this is the only one having the issue. Could it have something to do with a poor multi site file structure?

Any help would be greatly appreciated.

Thanks
Scarlett