I have not tried your setup yet, but from what I can tell it’s a midi file that is copied and pasted, which is what drag and drop operations do anyways(like passing a data structure to the clipboard from Kontakt, and then the dropping event sets off code in Renoise to copy the data from clipboard after parsing its intended file format, at this point Renoise can choose to ignore the dropped data as well if format is unsupported). I too use Kontakt from time to time, some of the libraries have an internal sequencer which works in tandem with Renoise, and the patches load up with the sequence data too so never had to explicitly drag and drop a midi file to again retrigger it back in Kontakt(double-retrigger lol). First check if there is a way to persist that sequence data within the Kontakt library too. That should help for future edits, ideally you should be making music and not struggling with how to transform data structures due to idiosyncrasies baked into software by every individual developer.
So just to be sure you can work with the midi file, try to do this on another DAW and see if the midi file is rendered well and that you can use Kontakt in the other DAW. Then save that midi file from the other DAW and open it in Renoise. At this point check if the note names and octave numbers are translated well. You may have to join and manually move pattern data to build a smooth linear sequence. Check the tempo and adjust LPB affordingly. Load the Kontakt vst and check if the triggered sample octave numbers align as well with the original Kontakt internal some mapping window becos sometimes Kontakt reads the input midi data by one or two octaves up or down, if not then transpose. Once you work out the differences, it should be easier to figure out what to fix.
Or you could just bounce the audio and mangle it in Renoise which is what it’s made for, similar to MPC or any other beatboxes…less midi and more audio and FX. This process is called sampling, which can use midi to generate the sound but the midi itself is not used after that part.
Renoise still handles midi better than say OpenMPT and that should be leveraged. A separate tutorial on how to best use midi should be posted in this forum somewhere…
You could try drag n drop on a Phrase window if it works (not tried, just conjecture).
You can start by sharing your experiences.