Try this: Create a new folder, and in publishing settings, (Ctrl+Shift+F12), change the location of the swf and html publishing to that folder. After you publish it, upload that entire folder (or the content inside). Or maybe you used absolute paths- like when you referenced a external text, etc, you said "C:\Desktop (Your swf is here\hello(Your txt)" instead of "\hello\".
PM me since I frequently forget some threads I replied to! =)