If Safari won't save or print PDFs (but views them without any problems), you probably have an Adobe PDF plug-in installed. In Safari, go to Help->Installed Plug-ins and do a search for "PDF." If you have anything with "PDF" in it other than "WebKit built-in PDF," that is probably the culprit.
On my computer, the problem was "AdobePDFViewerNPAPI.plugin". To remove it, I quit Safari, did a Spotlight search (Command-Option space) for that file name, and then dragged it to the trash. When I restarted Safari, I could print and save PDFs again. You can also manually find the plugins by going to the system "Library" folder (the one at the root of your hard disk, not in your user folder) and looking in the "Internet Plug-Ins" folder.
I'm on OS X 10.8.2, running Safari 6.0.2 (8536.26.17).