Toot and other unaligned fey obviously have free will, or they wouldn't be able to pick and choose sides.
Toot was quoted in the books as saying he had the freedom to help Harry because he had not yet been called by either side. In addition, he had a long-standing obligation to Harry - the Pizza deliveries formed, in effect, a contract between them, and he had an onus of debt towards the Wizard. I don't believe he has free will at all. Hell - in Storm Front, Harry makes a big deal out of how he's bound 'round by the Faerie limitations of honesty and the rule of three and all that.
For that matter, it's mentioned a number of times that the Queens and Ladies and Mothers have no option but to follow their nature. Exactly *how* they follow their nature is up for some debate, but their nature is the driving factor there. The Knights are different, being Mortal, but their ties to the court allow some very strong magical compulsions to be laid upon them if desired. But even then the Ladies are almost a bad example - look at their entry, OW41. The Ladies are, very specifically, "the closest to the mortal world", the most closely tied to the Knights, and
cannot interfere with the workings of the court in Faerie. I interpret that as, they don't have full free will - they must follow their nature - but their nature is to be the Queen's avatar (so to speak) to the human world... And to be most influenced by it.
Look at the paragraph on OW22 -
The Knights
can also act in affairs not directly related to
Faerie, making them the primary outlet of the
Faerie Courts for intrigue in the mortal world.
This relative freedom is, of course, enabled
by the fact that Sidhe Knights must be
mortal—i.e., human.
...Implying the Queens (including the Ladies)
cannot cannot meddle in purely mortal affairs unless the Court is already involved with them.
I dunno. I see it this way. We know that anyone who hits zero refresh is considered non-mortal and an NPC - their nature has overtaken their will. In my mind, then, the more refresh points of non-mortal-Stunts you have, it's more of a "sliding scale" of nature vs. free will. A full RCV or WCV is higher refresh than an infectee or a virgin, and have less free will than them - their nature has overcome more of their being. A Wizard, while mortal (or close enough) and with Free Will, is a slave to his nature - and his nature reinforces his existence as a Wizard. A Werewolf is slave to his beast - his nature - as much as any Demon, even though he retains Free Will. It's not a zero-sum game; it's shades of grey all the way down the line.