Those waypoint altitudes are too low. GPS is generally only accurate to within a few meters so 2m could still be on the ground. When the plane banks it may also drop a bit of altitude and if your only a 2m it could easily hit the ground.
There are 5 log files in the link you provided. We only want the 1 that has the actual crash in it.
You need to be able to fly the plane in manual first, trim it out and then start the tuning process (plane.ardupilot.com/wiki/flying/ … arduplane/). Once that’s completed then set waypoints at reasonable alititudes.
Thanks, Grant.