If you don't upload your variable files, you won't lose any of the style settings. I don't think any upgrades have ever called for reuploading variable files, so you're pretty safe there.
You should upload all the changed CGI files & template files, and then rehack the ones that need changed to include the hacks you want.
---Skorpion
Don't put that signature in your mouth! You don't know where it's been!
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