Generally the keyboard and mouse should go into the HID ports of the KVM. However, not all devices may be compatible (see the FAQ [Official] L1Techs KVM FAQ -- Ultimate Guide & Help!). Not sure about the pass-through on the keyboard, but I believe that should go into one of the USB 3.0 ports of the KVM (i.e. not the HID ports).
Why do you think you’d need USB A to USB A cables?