Your issue has nothing related to the current sensor config.
As you can see the PFD is not really normal if you compare with this one:
You simply need to reset the GCS config after you update to 16.09.
File > Import/Export GCS Settings > Reset config button and restart GCS
You will also find a "GCS (Clean config)" shortcut in Applications menu > Librepilot folder.
Be sure you removed the previous installation or installed in a different folder.