I seem to have hit an issue when setting up flight plans for large (fixed wing) survey areas. There seems to be a limit of around 725 waypoints/commands that the flight controller (Pixhawk 2.1) will accept. If I try any more than this I get an error as shown in the image. This may seem like more than enough, however with large survey areas and all the camera firing positions, it is very easy to exceed this number.
I have also uploaded an example flight plan for anyone else to try upload: https://www.dropbox.com/s/kezmka1ibqgac31/Flight%20Plan%20A%20(could%20not%20load).waypoints?dl=0
Any help appreciated, thanks,