Hi Sunny/Colleen,
Although its quite late to reply on this old thread, but since I am facing the same issue I would like to know more about how you resolved it.
I am working on an upgrade project from ECC6 EHP4 yo ECC6 EHP 6. I have executed SU25 2A and 2 B till date. But to my surprise I see all the Z tcodes listed in SU25 2B. Isn't this strange? This is the same issue which you have mentioned in this thread.
Also I get a similar detailed report in 2A step, while in my past project we never received any outputs in 2A. Also this report shows few tcodes where the customization was done in the previous release i.e EHP4 but in EHP 6 there was no update done. Ideally I should see these kid of tcodes in SU25 2B where I should see my customization done in the previous version and I have an option to keep it or overwrite it with the SAP default. Is my understanding correct?
I hope that the logic of 2A and 2B steps are not changed in EHP6. Let me know your experience on this.