You're right - they have gone from somewhat opposing each other to working together. Documents found from Zarqawi today prove that.
This is from a freeper's blog:
Baathist holdovers have admitted putting aside any ideological differences with Zarqawi to cooperate with him for a "greater" cause (something critics have argued wasn't possible).
http://markeichenlaub.blogspot.com/2006/06/strategic-relationship-between.html
Usama Bin Laden and Five Others Docket, November 24, 1998
(Superceded: See 11 November 2001)
http://cryptome.quintessenz.org/mirror/alqfiles.htm
No mention about Saddam and al Queda connection. The superceded version sounds like handing down the sentences but tells the reader to see: related trial transcripts:
http://cryptome.org/usa-v-ubl-dt.htm
Interesting note...who is Mamdouh Mahmud Salim
(Aka) Abu Hajer al Iraqi
http://www.terrorismcentral.com/Library/Biographies/Bios/Salim/BioSalim.html
Who is Wadih el-Hage
http://en.wikipedia.org/wiki/Wadih_el-Hage