The scheduled job is using the default Notes.ini and is being prompt for the Notes ID password.
This can be verified by running the task from the command prompt.
C:\Program Files (x86)\Quest\Migrator for Notes to SharePoint\Bin\NMSPCMD.exe -taskname "..."
To override the Notes INI file location see one of the following options.
In Migrator for Notes to SharePoint Console
In Migrator for Notes to SharePoint Designer