Any recommendations on learning to "think clearly"? I feel like this is something I struggle quite a bit with and haven't found any good resources on improving it other than "sleep" and "exercise", which I'm not lacking in.
Unironically, that's what school is supposed to be for.
There's keeping the engine well maintained (the sleep and exercise part, for example) and there's driving the engine down new paths and honing you driving technique. You work on the latter by exposing yourself to novel and interesting arguments (interesting philosophy or argumentative non-fiction, for example) and then working through the argument again with counter-arguments in mind. I would not recommend pop-sci books for this, because their arguments and writing tends to be quite flabby.
I'd actually recommend something like RG Collingwood's "The Principles of Art" which is a relatively plain English example of well written philosophy:
You will disagree with him. The point is to understand how and why you disagree with him and to explain that clearly, not only to yourself but others as well. Thinking clearly is about responding and communicating clearly while displaying a sure and succinct understanding of the problem at hand.
You can apply that to everything you read or are confronted with, but the key thing to realize is that "thinking clearly" is something you practice. There is no one trick --- it's an approach.