SSO Configuration : Dual Stack Installation with same SID

Dear SDN users
We upgraded our BW system to 2004s with  Java add-in installation. We used same SID for ABAP and Java stacks. I could not find a good document to configure SSO between ABAP and JAVA with same SID installation. I would appreciate if you can provide a link to the document or give me sequence of steps to be executed.
I am aware of note 917950 and 888687.
Thanks in Advance
V Reddy

Chetan
We are done with upgrade. Currently we are using SSO with UIDPW. I would like to configure SSO using certificates..
If I remember correctly instguides suggest to run template installer. I did use template installer but it fails in some steps as we have same SID for ABAP and Java. I manually configured all the steps using instructions from " SAP Nw2004s BEx WEb System Landscapes" published by Tobias Kaugmann. Still no luck.

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