So I guess the remedy would be to use it as a modular and not go to the extent of changing your sequencer velocities. I do that. I never suffer from this anymore. It anyway only happens when the attack is all the way down. Been using this for 4 or 5 years now.
I made some really cool sounds with mine yesterday. seems to start in at exactly 7:45 after I did a minute or less of workup on the settings. In this case I think the stepping sound I got came from the LFO's random waveform selector. I think, I usually just turn those dials and can't see very well because it's all pretty small. I know for a fact I was turning dials in the LFO section. About 10 minutes later I turn down the frequency of the LFO and it keeps with the rhythm pretty well that is set up. Cool instrument. Always glad to have it in the show.
Mess around with the prophet for a few minutes but the Roland comes in after 7:00 and that dazzling thing with the 1m at 7:45 check it out.
https://studio.youtube.com/video/MMhL8yE5dL8/edit