Go ahead and place logo change requests here in this same thread or over at the Graphics Request board. The .pbt file includes a blank logo in the images area. The .zip file contains the Header, Base, and Menu Button images, which you'll need to use in the plugins below.
I used two plugins to create the final look on this skin: Classic Proboards Menu and Pebble's Head Base Side Images plugin which can be downloaded at IOD. If you can't access either of these plugins, send me a message and I'll send them to you. Enjoy!