Hello Pankaj,
Well, from what I see, it's not CMOD which tells afp2pdf which ressource to take, but it is afp2pdf which is called with ODWEK, and then because he has the APPG, then it takes the correct ressource.
Meaning CMOD has no influence on afp2pdf. But ODWEK yes.
But it means also, that if you want to do something else, you need to program it with the ODWEK APIs and AFP2PDF APIs.
If it's not a path you want to take, then the approach would be... create a new application group to have a new logo.
Cheers,,
Alessandro