Portable Apps Restore Tries to Restore lots of system files

Hello,

I recently became a donor to PortableApps.
So I would like to obtain some support.

I am using portable apps as normal programs on my Windows computer, installed in c:..prgs ..portableApps
Recently the system failed, but I had a backup SSD.
But the backup only contained an old version of the portableApps platform.
So I wanted to restore the portableApps to the backup SSD.
I previously created a backup file with the PortableAppsBackupRestore.exe (164 KB) tool .
The platform worked well on my main SSD that now had failed.
I was surprised to see that the restore wanted to copy lots of system files:
Some Examples:
C: Windows servicing LCU Rollup_Fix
C Program Data USO Shared Logs
C:\Users\All Users\Kaspersky Lab
C:\Windows\INF\
C:Windows\WinSxS\amd64_microsoft...
... Catalogs
... Manifests\amd64_microsoft
C:\EFI\Microsoft\Boot\kd_02_15b3.dll C:\Boot\bootuwf.dll
C:\Boot\bootvhd.dll

Fortunately this modification of system files is nearly ever allowed. The typical error message:
ERROR: Cannot delete output file : Access is denied. : C:\Boot\memtest.exe

Why does this restore fiddle in system files and applications that are NOT portable Apps like Kaspersky Antivirus?
And not simply restore the portableApps folder and the assigned categories for each app?

At the end the restore of the apps and the categories worked fine.
But why do you touch system files, instead of focusing on the portableApps?
Thank you for your help.
George