I remeasured the powers in the ALS fiber path, this time without a filter on the power meter.  

10.15mW out of ref cav

95uW into path to fss_TPD and camera (TPD currently reads 0.98V)

9.8mW into ALS Faraday

9.08mW out of Farady (HWP is set to 51 degrees, QWP set to 101.5 degrees)

1.77 mW into fiber external PD (5.54V on fiber external PS readbacks) (before I had measured this with this filter on, and got 1 mW, that is why Alexa found a high responsivity for this PD)

7.2mW into fiber

FIBER internal (which monitors the power received from the fiber in the distribution box) reads 1.71, I just measured 4.78mW returning to the PSL when the two fiber ends by the distribution box are connected to each other (there is at lest 4.78mW getting ot the fiber distribution box).