Edit : looking at the logs, this is starting to look like a possible issue with the pixhawk configuration / programming? It does not seem to be sending "ch1up" signals on the 1st channel connected to the gentwire-USB2 device? So the gentwire-USB2 is never asking the script to releaes the next sync'd shot.
Rereading you comments, are you trying to tell me that the pixhawk can only generate a ch1up pulses slower than once a second? Is there a handy pixhawk programming guide somewhere?
Note : you might want to set the script parameter labelled
USB Timer Precision (msec) to 1 rather than 10. This enable more precise timing of the signal from the gentwire-USB2.
I went out testing today I made 3 flights and not a single picture from B9. 
So I assume you did not test things on the ground first?
I just came back and set up a test rig: fully analog, no chance of error... B9 freezes. 
Can you be more specific than "freezes" ? Does it get past the initial "waiting on USB signal" message? If so, it should loop slowly taking picture every 10 seconds if pulses are not received more quickly than that.
I reload the B8 workand it works...
B8 just starts and runs as fast as it can until it it told to stop. No sync with the flight controller or anything else to wait for.
I go again through the settings and I it strikes me: Gentwire is not capable to work with PWM inputs less then .7 seconds.
I'm confused here. The gentwire-USB2 will take a servo pulse signal between 1 mSec and 2mSec repeated ever 20 mSec and convert that into a pulse between 20 mSec and 180 mSec. Where does .7 seconds come into this discussion?
I connect the AP and I get my confirmation: once I go at .6s camera stops shooting (only the 10 second shots are taken). 
Hmmm .. are you sure that the pixhawk is changing it's servo output so that it should cause the gentwire to send ch1up and then ch1mid and then ch1up again?
After a cigarette,
Tobacco ?
I decide to test the capability of the AP. Can it output .1s PWM signal? NO it cannot, no matter what I try!?
Again, I'm confused. Please draw me a diagram of what you mean by .1s PWM signal ?
I will run another round at the Pixhawk forum, but so far I see no possibility of actually using the the autopilot as shot controller.
Can you post a link to the Pixhawk forum where you are having this discussion? Might be easier to follow there.Found it - although it seems to be going offline a lot tonight.
