Digitakt + Hypno setup:
Go to the DT SRC page. You’ll see a bunch of X’s. Press FUNC + the top left knob, release the FUNC and twist to set the midi track to channel 16 (Hypno midi channel is 16 and it’s unchangeable). You’ll need to do this for each of the midi tracks you want to use.
Go to the TRIG page to access Hypno presets beyond just the 3 on the front panel. This is where you set note values to recall Hypno presets. You can plock different notes on different DT pattern steps to change Hypno presets but don’t (at first). If you start with a particular preset and then use the LFO to glitch it (there’s only 1 LFO per midi track) and then you plock another preset on a different step, the LFO may not look so good on the 2nd preset. Just use a single video clip / preset for each DT midi track (most of the time) and ensure the LFO for that track is doing what you want.
A note on repeating DT patterns and tracks when using multiple Hypno presets. If you place multiple different note / presets on different midi tracks and then play / repeat the pattern multiple times, the preset changes will only trigger once and won’t retrigger again until you stop and restart the pattern. For example, use midi track 9 to trigger a Hypno preset on the kick (beats 1 and 3) and use track 10 to change presets on the snare (beats 2 and 4). Press play and the Hypno preset changes will start but they’ll stop on the last trigger. The audio portion of a sequence will continue playing but whatever triggered on the last midi track will continue showing with no new preset trigger changes. The last midi track LFO will also keep doing its thing. In this case, you must plock all TRIG page note changes (preset changes) in order to have them continuously retrigger through multiple pattern repeats. This is important only if you plan on playing multiple repeats of a pattern and want the Hypno video to keep switching.
Go to the AMP page to set the Hypno midi CC’s you want to glitch [see this Hypno midi implementation chart ]. There are 8 DT knobs so you only get 8 CC’s per midi track. You can use plock’s for more parameter changes but don’t. When things get too weird you’ll never figure out what you did. You can access more CC’s for the same video clip by triggering a different midi track on the same beat (or a different beat) with different AMP page CC’s while using the same TRIG page preset selection. Use the different midi track LFO’s to make CC values move.
To manually twist and glitch using DT knobs, go to the FILTER page and FUNC + press each knob to activate them. Twist and turn and anything that happens will be based on the corresponding CC entries you made on the AMP page. Again, you can plock any of these parameters but, see previous warnings.
It’s easy to get confused while playing live. Pay attention when switching tracks and know whether the DT is in step or live recording mode (or not). If not, you can hit a midi track to immediately switch to that Hypno preset. Any sequenced changes will still occur when a pattern is running.
You can mute audio and midi tracks globally and per pattern. If something goes bad live you can mute the midi track until you fix it. It’s also easy to accidentally switch pattern when you think you’re switching tracks 
I never had much use for Digitakt midi tracks until I got the Eyesy and Hypno. I still only use the Digitakt for the Eyesy but might mess around a bit with Hypno (just changing presets) and leave the glitching to the cv outs on my Mavis.
Practice makes perfect and sometimes happy accidents!