If you are recalling presets using PC messages over the C4’s USB port then the preset will be loaded in the state stored in the preset. If you want them to load in the bypass state, you’ll need to edit each preset and change the “engage/bypass state upon load” function and resave them.
That’s not true - if you’re using MIDI over USB then you can send PC messages to the C4 via its USB port to directly access its internal presets.