Hey, "Mike" - Love your stuff, man...
OK, so, how is it that you suspect this to be a SublimeText issue? How is ST involved in your toolchain?
What version and build are you using?
Are you using ST standalone, or is it specified as the external editor for Cyberduck, or do you have a plugin/command that calls it?
Have you dl'd the .css and .js files after FTP'ing and diffed them?
I notice there are some (usual) minor differences in presentation between FF and Chrome on your home page, but it looks 'OK' to me on both... (on Win 7 x64).
Could you post some screenshots somewhere showing the difference in what you see in your browser when loading from the file system and how it's showing when it comes from Apache? (Got any funky middlewares rockin' it there?) Also, what browser are you using?
1.) I'm seeing a ton of 304's in .../Home_files and .../Scripts, in FF, but not in Chrome, and I've got all resource modes enabled in Chrome Dev Console. But that may just be 'normal'. I don't use FF that much. But not seeing any 4xx's or 5xx's. So that's good.
2.) And your ProductGuide pdf takes f o r e v e r to download. Jeeeez... Might wanna check into that a bit.
Aside from that, dunno much else at this point...