The volume and tone pots were a different values, 1M for 5E3, 350K for the Martin. You saw the coupling caps, and 12AX7 instead of 12AY7. A little more gain from the 12AX7, maybe that's why or part of why the difference in the coupling cap values, to strip back out some of the gain/bass?
Tone Quest Magazine did a review of this amp and they loved it.
What's the one thing most people would change about the 5E3? Maybe reduce the mud under distortion? Bigger RC equals lower turnover frequency.
Pretend the 5E3's volume controls are full-up; ignore the output impedance of the previous stage (it counts, but will impact both situations about the same). 1M and 0.1uF -> RC= 0.1 -> 1/(2*Pi*R*C) = -3dB @ 1.6Hz (!?).
For the Martin/DeArmond, we have 350k and 0.01uF. 1/(2*Pi*R*C) = 45Hz. We still have full guitar range, but have likely lost some of the mud, just in the coupling between the first and second stages.
You noted the input 12AX7, but the reduction of the volume pots to 350k is a heavier load on the input stages, and reduces the actual gain of the input stage. Pretend the tone circuit doesn't exist; again, it will affect the DeArmond and 5E3 similarly.
The effective plate load under signal conditions is the actual plate resistor
in parallel with the following stage's grid reference resistor (or volume control). With a 1M volume control or grid resistor, the 100k plate load looks like 100k ll 1M = 90.9k. With a 350k volume control, it looks like 100k ll 350k = 77.8k.
Let's assume the 12AX7 has a mu of 100 and an internal resistance of 60k (these exact values vary depending on the operating point). Gain with the 5E3 values is A = 100*[90.9k/(90.9k+60k)] = 60. With DeArmond values, the gain is A = 100*[77.8k/(77.8k+60k)] = 56. Not a whole lot of drop with the DeArmond values.
What about 5E3 with a 12AY7? Assume mu of 44 and internal resistance of 25k. A = 44*[90.9k/(90.9k+25k)] = 35. So with 5E3 values, swapping a 12AY7 for a 12AX7 nearly doubles the gain of the input stage (noticeable).
So the DeArmond keeps most of the hopped-up 5E3 flavor, but shaves the bass about 4 octaves at the input stage, and by an octave in the output stage. That oughta keep the sound more authoritative, better under distortion. If they used a bigger OT for less transformer saturation, then it might convincingly sound bigger with bigger/more speakers.