When editing a song part, with Auto pilot enabled, if you leave the first box for the FILL # empty (nothing in the box), then BBMO seems to ignore the # of measures specified for the Main beat of that part. Entering “0” into the Fill field then seems to correct the issue. Basically, it seems that you MUST have something in a “Fill” field (it cannot be blank), in order for the Main beat to play the correct # of times (as specified by whatever # you put in the main beat section.
Thank you for reporting this! Could you please attach a screen recording of the issue so that I can reproduce it on my end? Thank you.