did you save with panel header and one measure space? it sounds as if this could be one problem.

Also a midi file is one voice for each track, if you have different voices for intros, variations etc, or have used panel memories it will need further treatment.

if you carry out all the exercises in "how do I do that" from beginning to end you will have all the principles of this job. It is not in a specific step by step because I've done it many, many times and just cannot raise any enthusiasm for it. The midi files never sounds as good as the original technics format, and require expert micro editing to sound close. It's just a function of gm sounds and controllers being so basic compared to the technics capabilities. Now with mp3 available its not worth the effort for the result. Just my opinion.