I, personally, find it dishonest to call another by their preferred pronouns (I perceive that they are not the sex they wish me to refer to them as, therefore to deny my perception would be to lie.

Oh wow, who would have guessed that a free speech absolutist is a transphobe? Shocking!!!!!

but I am not trying to hate anyone. I don't think they should be treated differently from others, nor am I trying to make them feel unloved or hated in any way; rather, I am simply trying to be honest about what I see.

By denying them their gender you are denying their identity, hating them and treating them differently just because they are trans/nb and making them feel unwelcomed, unloved and hated, something you doesn't do to cis people.

And all that is assuming you can even "tell" when someone is trans.

You're not being honest, you're being a self-centered bigot that clearly doesnt understand gender, neither trans nor non-binary people.

Here's another example: Say I conduct a study that compares the IQ of different ethnicities within a country. If I get results that slant one direction or another, publishing such a study might be deemed hate speech.

Ugh, here we go.

IQ is only ONE measure of skill/"inteligence" that is very limited and doesn't mean much.

Also your example just shows you wouldn't understand the meaning of the results of such study. If the data represent that a given ethnicity got lower scores that's only the start of the study, you then have to go deeper to understand why. Is it because they are "less inteligent", or is it because they are a marginalized group that receive less and poorer education? Is their education on par with the other tested ethnicity? How do another group of the same ethnicity on another conditions/country/whatever fare in the study? Etc, etc, etc.

This have already been done and research suggests the difference encountered is directly correlated with the environment differences, that is, the material conditions of the different groups of people tested.

On the second panel, you see the hateful man holding a book with a cross on it and saying that LGBT people in the background are affronts to God. Later, he is seen become an obvious totalitarian authority of some sort. A Christian might find such a comparison offensive.

So what? Atrocities have been commited in the name of their religion throughout history, why should we care if the christian find it "offensive" that they are depicted in the wrong for the wrong thst they are still doing? They literally brought this upon themselves by allowing this hateful anti-LGBT behavior to still exist within them.

They may truly believe that homosexuality is wrong because that is what their religion teaches.

Then they need to adapt to the times and start seeing LGBT as people like we are. Or they can go fuck themselves. One side is just trying to exist, the other is spewing hateful views and lies about them. There is no space for intolerance in society.

Would preaching that topic become hate speech? Would preaching that RELIGION be considered hate speech?

Yes. Either change your views and adapt or fuck off. If they don't respect people they should not expect to be respected, no matter how much they convinced themselves they are right.