If you can’t fix it ask SAP!!

Many folks have issues with their BI and Portal Configuration and wonder why they cannot see the Java and ABAP talking to each other. SAP has several notes that can guide you through the steps, but there is one Note 917950 - SAP Netweaver 2004s: Setting up BEx Web
This note is unique as there are some files attached at the end of the note.
Problem Analysis.zip WDEBU7_Setting_up_BEx_Web.zip, System_Upgrade_Copy.zip and Checklist.zip.
The problem analysis lets you screen shot those errors and send it to SAP and seek their help!
The checklist will help you to keep a track of your configuration.
Note 937697 "SAP NetWeaver BIDiagnostics & Support Desk Tool" helps to check the configuration of your system and to collect detailed information regarding your SAP NetWeaver BI installation.

To baby feed yourself use this note which has a template installer and does all the work for you !!
Note 983156 - BI configuration w. Template Installer