id first suggest you reset the settings to default… as basically this should pretty much work out of the box
as @Robotboot already set, you do should not have MIDI A set to OUT+THRU, just OUT.
if that’s not sending midi to the synth, then that is your first indication of a misconception or a setting being wrong.
you will probably want to set OMNI to multibank A, so that each midi channel goes to its own track (A1-A16) … though this is only necessary if you want to record multi channels at the same time.
you also need to ensure that each track has its output set appropriately (e.g. MIDI A, and channel number)
you can debug this all , by looking at settings->info the scroll down to midi in/out to see what data is coming in and out (its useful to turn clock off temporarily, so you don’t have these as well )
I cant see why it would not work with your cirklon, it makes no difference to the pyramid if the midi is coming from a sequencer or a midi controller - its all just midi.