Hello Shaun,
Is this your first patch installation on the system, or are there already some patches installed?
Did you use the BuR_Industrial_Automation_APROL_Release_Key.asc file for version 4.4-01?
There is an option to run AprolPatchInstaller from the command line as root. If you run it in the terminal, you can skip fingerprint verification. However, this is at your own risk, as we can no longer guarantee that the file comes from B&R and has not been altered.