If free will were to exist, humans would somehow be the only exception in the entire animal kingdom, yet somehow we are still cut from the same cloth as them
I'm just going to define free will in a non-compatibilist way. I'm not saying I necessarily believe it, but it is useful to give precise definitions first.
So I would define free will as an ability to choose between different courses of action, such that if person a chooses x, then it's possible that person a could have chosen y or z instead. Moreover, person a will be able to give reasons why they chose x over y and z, so that it wasn't the result of a purely random process. So there has to be an element of conscious control involved, although the conscious control will not itself be determined by external deterministic forces.
On this definition, person a's choice of x cannot be submitted to a 'Laplace demon' analysis ("An intellect which at a certain moment would know all forces that set nature in motion, and all positions of all items of which nature is composed, if this intellect were also vast enough to submit these data to analysis, it would embrace in a single formula the movements of the greatest bodies of the universe and those of the tiniest atom; for such an intellect nothing would be uncertain and the future just like the past would be present before its eyes").
Free will on the above definition prevents a Laplace style demon from being able to predict the (non-coerced, non-compelled) choices of a being with free will, even if it has total knowledge of the past and present.
So, just to address your point, every species is different and has different abilities and adaptations. Birds are cut from the same cloth as humans, yet they can fly and humans can't.
Humans are the only exception when it comes to having a syntactical language, so why not free will too?
Perhaps free will is an emergent property of the prefrontal cortex and results from a synthesis of high-order self-awareness, decision making and cognition.
So free will is an natural property, in that it is grounded in molecular motions and electro-chemical processes and atomic interactions, but it is more than what it can be reduced to, or the sum of its parts. Like the wetness of water is more than just its chemical compositional breakdown (H2O molecules). The wetness is an emergent property once a certain complexity and magnitude of chemical composition is reached.
But it does seem that, unlike the wetness of water, free will violates the laws of physics in terms of determinism, predictability, non-random outcomes of macro processes etc. In trying to ground free will naturalistically, it seems that it undermines that very naturalism.
Its higher order properties in terms of stochastic/non-deterministic decision making undermine its chemical and physical basis and vice versa.
So, maybe stopping at the chemical and molecular is arbitrary, and that's why you get the inconsistency.
Maybe you have to understand the higher order property of free will in terms of its more fundamental constituents, i.e. quantum processes.
So, quantum entanglement, superpositions, nonlocality, wave function collapses etc.
But, these are said to be indeterministic, 'random' processes and events which can only be analysed statistically, so how can a coherent understanding of free will be based on them, when free will requires an element of conscious control? Also, how can we somehow be in 'control' of these processes when we're not even aware of them and they're governed by laws of probability which we don't understand or choose?
And even if we were somehow in control of quantum processes, that would just beg the question how we are in control, and what it is that's doing the controlling.
If, on the other hand, it's the quantum processes themselves that are controlling and 'determining' decisions at the macro, higher-order level of the organism, then free will would be undermined too. We'd be at mercy of the quantum instead of at the mercy of the chemical or molecular.
It seems that whichever way you slice it free will as defined above is an impossibility.
The only way out is to redefine free will so it fits with determinism. But this is basically a capitulation and admission that there is no true free will.
Just some random thoughts (although they were determined too).