Any way to get rid of prompt when deleting an application with sysExt

Would like to see with you any possibility to remove such a prompt when deleting an application with systemexention from /Applications fold with Finder.

No. This is the actual System Extension being removed and that is why the prompt is being displayed here. This is not happening because the container app is being removed from the /Applications directory.

I would encourage you to leave this as is, and do not look for routes to avoid prompting the user here. Such routes may leave your System Extension orphaned on the system with no way to remove or deactivate it.

Matt Eaton
DTS Engineering, CoreOS
meaton3@apple.com