hmm if you parameter-lock the arp “transpose” parameter to a trig in the pattern, shouldn´t that work for you as well?
that way it SHOULDN´T lose the info when you switch patterns… but you´d always have to make sure all your patterns switch so step 1 always plays (i.e. no “switching patterns in the middle”).
this reminds me that I haven´t played with MIDI on the octatrack in a while… I guess I should go do that 
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