EDIT** Read Cam's post below! Disregard this
Hey burningbee!! Yes, you will start "fresh". Try backing up the file "states.dat" that is located on the aircraft's root folder, and save it somewhere safe. After the update, you can paste this file back in and it should have your data there! The way the aircraft loads and saves data has been slightly changed in this update, so if you have any issues with doing that, then just delete the file altogether and you'll be fine.
Hope this helps!
Respectfully,
Dan.