I have not seen such a problem. I do very much records with the sequencer. Is your problem only in the BigBand-group or also in other rythm-groups?

You can try the following:

1.) make a realtime-record with some measures including intro (as you normaly do).
2.) go into step-record and choose part CTR
3.) scroll to the end of the track and have a look for a * (=asteriks) (should be the last * of this track.
4.) move the cursor on this position and have a look on the display. It should show you ENDING1 (or in your case: INTRO 1).
5.) delete this * and press ENDING1

maybe this helps.