I am using OS X 10.15.7 on a new Mac mini. I have SuperDuper 3.3.1. I set SD to copy 'all' files to my external HD. When finished, the external HD shows 30 items in my Application folder but on my Mini there are 65 items in the Applications folder. I erased and copied 2 times with the same result. It's not coping 35 items in my Applications folder. Similar difference with Unilities Folder not copying all the items. It's not just ignoring third party applications as some of those are copied and some not. Also some Apple apps are not copied like Chess & Calculator.

What is going on with SD? Also when I set the external HD as the startup disk it takes like 20 minutes to boot up. This doesn't seem right.

Any enlightenment will be greatly appreciated.