Then it seems to me that you hold to (1). By (1) I mean that our desires are given and cannot be controlled (by reason or anything else we do). These desires terminate in action via various passive processes, including reason. That is, the acting agent plays no (active) role in transforming the desires into actions.
Maybe, I'm not understanding (1). "Wants are absolutely ontologically prior to reason/reasons" I would not say that desire is ontologically prior to reason, if you mean in order of being. These are faculties of a substantial entity. So, I took what you meant more in terms of "order of operation." In sense of order of operation, I would not say either reason or will are
necessarily prior to the other. I would say,
ideally, they should work in conjunction so that which is good, that which is perceived as good is good, and that which is wanted are all the same thing. That is the ideal. But the causal factor here is the perceived good. So, even if we say, as Thomas does, will is subject to reason, the driving factor is the perceived good (whether it actually it is good or not).
I hear Thomas saying the will is subject to reason, by design. I am not opposed to that. But, we know reason can be trumped by will if what we want is not truly good. What accounts for that? Some perceived good that overrides the deliverances of what is reasonable.
I would want a more precise definition here. Am I choosing between two dyed eggs which are perceptually identical? Or am I choosing between celibacy and marriage when I think they are both equally good?
If you are choosing between celibacy and marriage, and if they are actually comparably good in all the relevant respects, the choice is arbitrary to what matters in terms of freedom (i.e. responsibility). Of course, this also depends on if you perceive their actually, comparable goodness. Assuming they are, and assuming you do, then it is arbitrary. One good is as good as another good. Let's say that one is better than the other. So long as one of them doesn't become not-good (for whatever reason) it is still irrelevant in terms of moral significance. Be celibate or be married, just do it well either way, I guess.
It seems that if we cannot choose what appears to be good to us, then we are bound in the means by which we seek a hoped-for end. That is, we are bound to one way. This is because each step in the means to achieving that end will appear good to us, and at each step we cannot choose that something else appear good to us.
Let's approach it in terms of truth. Do we simply choose (decide) what is true? No, we find truth compelling, more or less. Maybe after much deliberation we come to see one option more likely to be true than another. Or, perhaps, we see it is obviously true. Whatever the case, truth is not something we choose, it is something that happens to us. Perceiving that which is good is similar. I can reason to what is good for any given moral decision. But my act is not going to be caused by that reasononing process, or if it is it is only part of a process. It will be caused, ultimately, by the perceived good, which may or may not be the same thing as the actual good.
Let's say I stop deliberation mid-route and decide to reason down another avenue. Whatever. Once I act it will be based on what I perceive as good at that moment. And what I want may be delivered by reason, or it may be delivered by desire so I use my reason to justify it, but the ultimate cause is some perceived good in that moment.
Let's say I have to choose between the healthy and the delicious meal. I can reason that it is good for me, even if it doesn't taste good. I can choose to eat it, because maybe I have other reasons (I have been fasting and exercising, so that it won't have a significant adverse effect on my health). I know the higher good is health, so I reason and choose accordingly. That's true freedom, and it is the percieved good that compels my act. Or, let's say I decide to eat it and have not been fasting, but gorging myself, instead. It just tastes so good! Here the perceived good that compels my act is the taste, and I am not free because I choose what is actually not good. In one instance reason seems to inform my act. In the other, desire. But in both the perceived good is what drives the act.
Thomas disagreed with Leibniz that there is a perfect world, or that there is a path of "greatest available good," and I agree with Thomas. I don't find good to be quantitative or measurable in that way. This means that I don't think every situation has an objectively perfect decision.
The world doesn't have to actually be that way to make the point. It can be an ersatz world, where we always choose that which is good. Even if we allow that there is a set of goods that can be chosen, instead of just one, so long as it is good, the choice between them is arbitrary in terms of moral responsibility. I am free so long as I choose something good. Or, so long as it is good, I perceive it as good, want it because it is good, and do it, then I am free. The moment one of those breaks down I am no longer free.
I am responsible no matter what, because it was what I wanted- i.e. perceived, chose, and did.
But does that mean that you are grounding freedom in arbitrariness and ignorance? For according to your understanding competing desires would only terminate in freedom in the case of equal desires and arbitrary choice. If they are unequal we will always choose the greater. It's similarly hard to see how flawed cognitive abilities themselves cater to freedom.
Yes, comparable goods are arbitrary in terms of goodness. One good is as good as another good, and anything "greater" is not morally significant. You could say we are truly free when confronted with multiple goods from which to choose. More to the point, we are truly free when we choose the good because it is good and we know (perceive) it. Of course, we will choose the one out of many goods that seems best to us, but it's no more noteworthy (morally speaking) than another, and it is free because the good, the perceived good, and the will are functioning in accord.
It's those moments when the choice is not good, but is perceived as good. This is where freedom breaks down. Reality, perceived reality, and will are not functioning in order. The entity is not functioning properly, and therefore is not free.
First, is actively altering our desires necessary for freedom? Second, if so, then how does one actively alter their desires? Is such a thing possible on your view?
Actively altering our desires is only necessary for freedom in the sense of proper function, which for the human entity is perceiving and acting on that which is truly good. We can alter our views by reconsidering. I can stop mid-reasoning process and look at it from a different angle. Does that make me free? I guess, but what is freedom if I reconsider one hundred times and still miss the mark in terms of what is good? If I miss the mark, it is because I perceived a good that is not real. Am I free in that case? No, I am broken, unable to act according to my own nature, because what I want is not good.
But for Thomas the good we seek is not one, nor would it be one in a perfect world:
Furthermore, that being is free which is not tied down to any one definite course. But the appetite of an intellectual substance is not under compulsion to pursue any one definite good, for it follows intellectual apprehension, which embraces good universally. Therefore the appetite of an intelligent substance is free, since it tends toward all good in general. (Shorter Summa, #76)
I am saying, the appetite (will?) of an intelligent substance is free,
in so far as it tends toward all good in general. Not simply because it can. In this world it does not tend towards all good in general, which means it is not free. Maybe, I am misunderstanding. I don't think it matters if there is one good, many equal goods, or a variety goods, just so long as they are good. Of course, Thomas must hold there is One Ultimate Good, and all others secondarily and contingently? Then it is One Good to which we are designed to seek, and obtaining that Good is true freedom.
It is fun how you tried to deny (1) at the start of this post and now you're basically accepting it.
Did I?

My apologies, if I did. I act like this is all clear in my mind, but it isn't, haha. I think I am saying the priority goes to the perceived good. Reason and will work together in terms of seeking out the actual good. In an ideal situation the perceived good would track the actual good, and the will would want and do what is perceived. I don't know if the breakdown is in the will or the reason, but there is a breakdown, I think.
From the very fact, therefore, that man is such by virtue of a natural quality which is in the intellectual part, he naturally desires his last end, which is happiness. Which desire, indeed, is a natural desire, and is not subject to free-will, as is clear from what we have said above (I:82:2).
This seems to be close to what I am saying. The end we seek is not subject to free-will. I am saying that end is the good. So, when our perception of the good is not actually good, that perception is what is driving my act, my choice, my decision. Something has gone awry, I think. We can use our faculties in hopes of correcting it (assuming I now recognize it is no longer actually good), I take it that is what you mean by freedom? I am going to say we are not free until our perception tracks the actual good and it terminates in action towards that good. I am surprised Thomas doesn't say the same thing given he knows the proper telos.
But on the part of the body and its powers man may be such by virtue of a natural quality, inasmuch as he is of such a temperament or disposition due to any impression whatever produced by corporeal causes, which cannot affect the intellectual part, since it is not the act of a corporeal organ.
Surely, temperament and disposition can affect the intellectual part. Help me understand this better.
But these inclinations are subject to the judgment of reason, which the lower appetite obeys, as we have said (I:81:3. Wherefore this is in no way prejudicial to free-will.
Does the lower part obey? Not always! Lol. Should it? Yes, it should. If it did we might be closer to being free in terms of the good.
And yet even these inclinations are subject to the judgment of reason. Such qualities, too, are subject to reason, as it is in our power either to acquire them, whether by causing them or disposing ourselves to them, or to reject them. And so there is nothing in this that is repugnant to free-will.
Again, yes, in an ideal world. But if that ideal world obtained we would always choose the good that the judgment of reason delivers. My thinking is muddled here, possibly, but I just don't see (phenomenologically speaking) that the will is always subject to reason. I'm up for correction in my thinking here.
More precisely, reason is capable of this act even if in some individuals it rarely occurs
And this brings us back to my point. Having the capability of functioning properly does not mean one is free. One is only free to the extent that capability is realized. And the fact that it is often not realized in most people consistently and regularly means something has malfunctioned. Freedom to miss the mark of what is good is no kind of freedom, if you ask me.