Hi Martin,
Thanks - this may prove quite helpful. There is indeed something different about the notes between the two files, which is one reason it's so important for us to know as much detail about a situation as possible.
If you open both your file and my file, and use the Format/Display pitch names in noteheads, you'll see a difference. In my file, there are no accidental symbols that show up. In yours, though, some naturals show up (the default setting for the "show pitch names" is to also show accidentals that don't normally display.)
Task2959-sm.jpg
This tells me that there is indeed something "under the covers" that is different between the files.
So, my next question is, does your keyboard have any kind of automatic transposition feature, and was that feature "on" when you did the step-time recording? If it has such a feature, and it was on when you recorded this file, please try turning it off and then record the same notes. Or if not, please let us know that, too.
Thanks for your help here!
Sherry