System file is not in C but in F hard disk.

Hi, it’s not a very serious problem as I think that I finally managed to configure Comodo but for a new user it would be much easier if someone can help with the following question.
When I use the “Scan for known applications” option in “Tasks” in order to configure automatically the firewall the process takes place in hard disk C:
I have dual boot system. I have HD C as the primary disk and F as slave (secondary) but the Comodo is placed in F the boot is from F (F:\Windows.…) etc.
How can I change Comodo to search in F and not in C? ???

Thanks in advance.