All settings look fine in Advanced Module Manager. Until ... I found out that a module assignment was different in the 1.5 site than on the 2.5 site. I took a closer look in both databases and found out, that the module ID's were different!!! Shoot! Somehow jUpgrade Pro wasn't able to assign the same module ID's in the 2.5 database.
What to do now...? I have three options:
After thinking some time about it I choose to go for option 3. So I created a list of modules and id's of the 1.5 database and also of the 2.5 database:
This way I could create the proper SQL statements to import the correct module settings. After that, it all looked okay. For example for the Headerfoto Actueel module: