There is a problem with the pimpship settings with the Shishapangma.
I have two characters with the same ship, I have tried to pimp them both using the guide that can be found: http://i.imgur.com/aj0rjun.png
I have had no problems in the past with the guide, and I tripled check my show setup. Yet the Nilpferd suddenly seemed no longer to be working correctly. I discovered today what might be the problem: the two ships seem to have different lights matching up with the actual hardpoint on the ship.
Edit: Both characters have the same items except the thruster.
When I equipped the Nilpferd with a different (basic) thruster, the hardpoints that match the numbers changed again! So it definitely appears to have something to do with which thruster is equipped on the ship.