Factory Fusion drive. 3rd party (OWC) RAM. never dug around terminal to tweak the OS, but i did use it once (about 4 clean installs ago) to delete iTunes..have since reformatted and cleanly installed mavericks about 4 times since then without going back into terminal for anything else.
If all file transfers are failing, then it definitely sounds like a RAM issue. I would try and run a RAM test. memtest86 I think works for Macs.
http://www.insanelymac.com/forum/topic/285041-how-to-run-memtest-under-mac-os-x/
http://osxdaily.com/2011/05/03/memtest-mac-ram-test/
https://www.google.com/search?q=memtest+mac