So, how different are these two oscillators? I was quite surprised at what I found, and never noticed untill I looked at them side by side under the scope.
Both oscillator waveforms measured straight from the oscillator output before the 25K mixer potentiometer, same "C" note on both.

From those scope shots, the CA3046 oscillator has a slightly hotter output. The CA3046 sawtooth is a little bent in the middle where the uA726 is more of a straight line. The surprise was the difference in the rectangle waves. While the square wave is about the same with the CA3046 having slightly hotter output, the rectangular waves are opposite. The exact width is a bit different too with the uA726 having a narrower pulse. Modulating with oscillator 3 the difference is easy to hear. Modulate the oscillators using a LO setting from the pulse waveform the CA3046 will go high longer, and the uA726 stays low longer. Filter sweeps with slow pulse modulaton would be different too. Owned these two Minimoogs for 30+ years and never noticed this easy to spot difference. Always a learning process!

The final output from the two Mini's pulse looks different too, and the signal from the CA3046 Mini is a bit hotter.

The filter differences seem a bit deeper. Not only were the first few hundred Mini's the only ones with fully matched pairs of ladder transistors, the capacitor brand/selection varied from year to year. From what I have gathered from photos and schematics of Mini filter boards: Most all Minimoogs have the bottom pair in the ladder matched wiith the remaining pairs somehow selected within a certain range. The caps used varied from the first thousand or so units using those Mallory "tropical fish" type. Some of the early '72 minis having those white type. And the remainimg majority of the Williamsburg era using these brown type in the ladder. (Haven't identified the brand for those white and brown type yet. Anyone?) At some time, perhaps with the Buffalo era, Mini's began using those plastic box type caps in the ladder.
The first 1000 Mini's filter boards had a few different resistor values, with the output to the VCA hotter (through 47K resistor) and the final buffer output lower (pair of 27ohm resistors). After about serial 2000 all Mini's had a higher resistor value feeding the VCA (82K) and lowered values on the final buffer (pair of 8.2ohm resistors). The very early Mini filter boards had a pair of 220K resistors feeding the filter buffer, (R20, R24 tag on newer schematics). And early on was changed to 100K for R20. Unknown why this was changed, but almost all Mini's have the 100K, 220K pair ? A few other minor changes like a range trimmer added and different resonance feedback resistor, but only the very first filter boards had those differences.
A few photos of the Mini ladder from various years.

Not sure what the impact of the various type caps have on the sound quallity? But this would be an interesting project, to construct a Mini VCF/VCA clone with selectable sets of capacators like the Moog 904A did. Could not only have matched sets of the various .068uF caps, but even a set or two of higher values like the 904A did. A six position-four pole rotary would do the job.
Something like this:

I'm tempted to swap in a set of matched "tropical fish" .068uF caps for those square plastic box caps in my 101XX Mini. And at the same time swap in a tightly matched set of TIS97 transistors, so I can measure the installed "selected" ones. And to see if I can actually hear any sonic difference. But the clone with a cap selector sounds like it may be more fun. Could have a 1971, 1972, 1974 and 1977 setting along with a deeper set of .1uF.
Have a matched set of caps ready and a couple hundred TIS97's to match.

Could be a fun project!
Anyone have Mini ladder photos with serial info to add ?