How do I get my fixed wing UAV to hit all of the waypoints?

I built HobbyKing's FPV / UAV Fiber Glass Kit V2 (With Flaps) 1660mm and flew it a few 
times to trim it out. I then installed my Ardupilot APM 2.5 with the latest firmware update. 
I walked through the online setup procedure, put in a few waypoints, a

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