I am now using this program: Aunsoft SWF Converter.
It is just used to convert swf/flash files to many other video and audio formats, such as MOV, MP4, WMV, MPEG, AVI, 3GP, DV, VOB, MP3, AC3, etc. It also can convert SWF to AVI with Alpha which can be edited in Adobe Premiere.
What's more, you can choose the profile just according to the specific device such as iPod, iPhone, Apple TV, Zune, etc. to get the right format.
I think it's useful to you.