Hey @zdrewe.com, welcome to Backstage, it‘s good to have you! 
I haven‘t used Ableton in a long time, but what do you mean exactly by „external clock popup“ ? It looks to me - based on your screenshot at least - that all the MIDI settings are showing up in Ableton and that it should work as expected.
Or are you trying to make the Synth the MIDI Clock Master?
The way Synth handles MIDI (when it comes to Arps/Sequences) can be slightly confusing at first as well. So maybe it helps if i explain that:
- When you press a Pad on the Synth and have an Arp or Sequence programmed on it. It will transmit the individual notes of the Arp/Sequence to your DAW.. if you are recording the MIDI information.
- Whe you send MIDI back in, it will playback that MIDI information normally.
- Unless you have Pad mapping (new since Firmware 1.3.0) enabled, then it will behave differently.