Summary:

I performed a preliminary calibration of the X and Y phase trackers, and found that the slopes of a linear fit of phase tracker output as a function of driven frequency (as measured with digital frequency counter) are 0.7886 +/- 0.0016 and 0.9630 +/- 0.0012 respectively (see Attachments #1 and #2). Based on this, the EPICS calibration constants have been updated. The data used for calibration has also been uploaded (Attachment #4).

Details:

I found that by adopting the approach I suggested as a fix in elog 11736, and setting a gate time of 1second, I could eliminate the systematic bias in measured frequency I had been seeing, the origin of which is also discussed in elog 11736. This was verified by using a digital oscillator to supply the input to the frequency counting block, and verifying that I could recover the driving frequency without any systematic bias. Therefore, I used this as a measure of the driving frequency independent of the front panel display of the Fluke 6061A. 

The actual calibration was done as follows:

1. Close PSL green and end green shutters. Turned off the power to the green transmission PDs on the PSL table and disconnected the couplers from their outputs.
2. Connected the output of the Fluke 6061A RF signal generator to a splitter, and to the inputs of the couplers for the X and Y signal chains.
3. Adjusted the amplitude of the RF signal output until the Q readout of the rotated X and Y outputs were between 1000 and 3000. The final value used was -17dBm. As a qualitative check, I also looked at the beat signal on the spectrum analyzer in the control room and judged the peak height to be roughly the same as that seen when a real beat note was being measured. The phase tracker gains after setting the UGF were ~83 and 40 for the X and Y arms respectively.
4. Step through the frequency from 20MHz to 70MHz in steps of 1MHz, and record the outputs of (i) Digital frequency counter readout, and (ii) Phase tracker phase readout for the X and Y arms. I used the z avg -s utility to take an average for 10 seconds, and the standard deviation thus obtained correspond to the errorbars plotted. 
5. Restore the connections to the green beat PDs and power them on again.

Y-arm transmission scan

I used the information from Attachment #2 to calibrate the X-axis of the Y-arm transmission data I collected on Wednesday evening. Looking at the beat frequency on the analyzer in the control room, between 24 and 47 MHz (green beat frequency, within the range the calibration was done over), we saw three IR resonances. I've marked these peaks, and also the 11MHz sideband resonances, in Attachment #3. It remains to fit the various peaks. I did a quick calculation of the FSR, and the number I got using these 3 peaks is 3.9703 +/- 0.0049 MHz. This value is ~23 kHz greater than that reported in elog 9804, but the error is also ~4 times greater (6 IR resonances were scanned in elog 9804) so I think these measurements are consistent.

Rubidium clock

I had brought an FS725 Rubidium clock back from W Bridge - the idea was to hook this up to the GPS 1PPS output, and use the 10MHz output from the FS725 as the reference for the fluke 6061A. However, the FS725 has not locked to the Rb frequency even though it has been left powered on for ~2days now. Do I have to do something else to get it to lock? The manual says that it should lock within 7 minutes of being powered on. Once this is locked, I can repeat the calibration with an 'absolute' frequency source...