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Nope, just missed it
This is not a bug or incompatibility, these genes should not work with mutants. For one reason or another, they are blacklisted for the mutants you listed. I have no idea what mutants are in the mod you named, but if they are not using vanilla human thinkTree, they should not be supported by these genes.
There's then a mod called One With Death that eventually turns you into a 'Lich', which happens to be a mutant state, and hence disables the above mentioned genes.. Rather saddening, but nothing gamebreaking.
This is a bit problematic, as the cost of the mechs is calculated automatically, relative to the health, class and purpose. But okay, I'll think about it.
Also note that in the settings you can increase the overall cost multiplier or decrease it.