So you don't need to make Carnor Jax particularly 'complex' although not being an idiotic Imperial leader in the Legends/EU continuity is a bar so low it might as be in Hell, although how you want to square that circle of competent Imperial who either doesn't defect but isn't the off-brand Thrawn according to Thrawn-stans is up to you.
The main thing is they have very different areas of competence. Thrawn is good at tactics, strategy, and showmanship. Carnor Jax is good at skullduggery and hands-on work; which is actually one of the areas Thrawn is weakest, unconventional assets were the ones he had the least understanding of. Carnor has a fairly good job of politics in figuring out what groups are threats and how to square the circle (who to eliminate if he needs them gone, or how to pressure them in line), while Thrawn's politics are more about figuring out how to grow his position within the system and handling rivals either through deals or out-clouting them, getting them to recognize it benefits them to follow his lead. Thrawn makes himself a very public figure, while Carnor is a very shadowy figure. Thrawn doesn't really get the force, viewing it as a bag of powers, while Carnor does.
Thrawn's a space guy, Jax is a ground guy. We never see Thrawn do much army stuff, but Imperial Guard have shown to be very effective in those fights.
Thinking about it, they're kinda opposites in the ways they're competent. Which has some interesting potential.
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