Nice.  

It would be a good time to retake the BN + cross spectrum with RIN to see if these improvements squash the 3 kHz hump.  You'll probably want to recheck the RFAM levels immediately before retaking the BN in case there has been any drift.  When plotting the RIN you should include a trace that quantifies the dark noise of the PDs and the shot noise. The traces are not much use if they are limited by either of these, the elog readers would benefit from having such traces as a bench mark.

A good thing to do, as well, would be to resurrect the AEOM power controls in both paths.  You can then use a swept sine to take a transfer function from intensity noise to beat note directly without just relying on the residual RIN of the laser*.  This will help you model the expected real TF from intensity noise to frequency noise (for the noise budget) and help justify the design choices of the ISS (how far along is the ISS BTW?).  It also lets you know the susceptibility of each path to RIN, regardless of the performance differences between the two laser.  Maybe its also possible to fine tune the offsetting on the FSS PDH controls by watching the transfer function live and adjusting the DC offset to minimize Intensity->FSS->Freq Noise conversion.  The offsets and gains on the FSS loop are now more or less arbitrary, this is something you can try next time you tweak up these loops.

THe AEOMs should be configured with s-polarized light (vertical) going into the modulator with a quarter-wave plate, followed by a PBS at the output.  Adjust the quarter-wave plate to get yourself to 50:50 splitting, this gives you the maximum W/V slope with close to linear response. You'll need to adjust upstream powers accordingly to give you 1.5 mW at the input of the RefCavs. Be aware of how hard you are driving the modulators so that you are sure that it is in the linear regime.  Terminate AEOMs when not in use. 

* It would also be nice to have a tap off somewhere (<10%) to be able to sample the pre-cavity RIN.  Given that any BS/ wedge you insert will misaligned the beams it will be a 0.5 day exercise to realign cavities etc, thus mid-low priority.