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Here are the equivalents as per best of my knowledge:
1. <WebLogic Home>\server\lib
For example, D:\Middleware\wls1036\wlserver_10.3\server\lib
2. config,xml located at <Domain_Home>\config\
For example, D:\Middleware\wls1036\user_projects\domains\ArunBaseDomain1036\config\config.xml
3. It should be the same as 10g (instead of OracleAS_Home, it will be ORACLE_Home) if you install the BPEL product. Since, I have not installed BPEL/SOA, I am not very sure.
4. It should be the same as 10g (instead of OracleAS_Home, it will be ORACLE_Home) if you installed the BPEL product.
Also, I would recommend that you consider using ORACLE Smart Upgrade (JDeveloper component) to help you with the upgrade process. It exactly points out these mappings of file/directory structures AND the necessary configuration changes as well.
If you are requirement, is only about making the library jars available to your application, then consider reading the below discussion.
Re: XIncludeAwareParserConfiguration cannot be cast to XMLParserConfiguration