In my last project I was heavily using pattern matrix mutes to help me come to a desired song arrangement. What I noticed is that when pattern mutes go over into non-mutes it sometimes happens that completely different tracks get glitches or even note offs / note kills. It took me quite a while to figure out that the pattern mutes were the culprit.
Does anybody recognize this issue? When I moved the muted patterns further down in the song sequence (all the way after the end of the song) the problem was immediately gone for the section they belonged to.