I think I understand your question. The actual "IA initial states" are not stored by the MFC, they are stored in the Axe-Fx preset. The per-preset expression pedal settings should most definitely be in the PRESETS page when you select that preset. Is that not the case? Go to the PRESETS page and switch between presets that have different EXP Pedal settings and you should see them change. If not, please open a support ticket and include screen shots, the Operating System and MFC-Edit version you're running and I'll take a look.
You can also send an email to
mfcedit@fractalaudio.com and attach the sysex file in question and I'll take a look for you.
-G