Many thanks for your post and apologies for inconvenience caused.
Can you kindly check whether the option 'Including dependencies' is checked?
When this option is selected, SQL Packager checks for object dependencies; if you excluded objects and other objects that you selected are dependent on the excluded objects, the excluded objects are packaged. For example, if you select a stored procedure and it references a table, even if you excluded that table, the table is still packaged.
By default, SQL Packager will include dependencies in the package. Clear the option if you do not want to include the dependencies. Note that clearing this check box may produce unexpected results or the script may fail. Roles and users are always included in the package.
You can find the option by navigating Tools --> SQL Packager Options --> Schema Options --> Behavior --> Include Dependencies.
Kindly uncheck that option and see if that helps, let me know how you get on with it.