I have noticed that I only see squid once they've breached surface of the water. Otherwise they are completely invisible. I usually play with hit boxes on and only the hit box shows where the squid is visible outside the water. Everything underneath it was gone. The hit boxes disappearing have also happened with items. The hit boxes under the water would disappear and reappear sometimes when closer to the surface. Sometimes just not show up at all.
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@[Mod] Galaxy_2Alex
Okay I'm curious. What may I ask, is that exactly going to show?
And, do you mean just the plain F3, or Shift+F3?

Yes just plain F3

I guess it hasn't changed from 1.16.3 to 1.16.4?
https://i.imgur.com/7cThZU5.gif
I've had it happen in single world play when 1.16.4 came out, I've seen it in servers, and I've heard other friends whom I play with in some servers say they've seen it too.
Also, I'm very sorry, I didn't see your reply. Did you want the F3 from single world game or server?
This actually appears to be a duplicate of MC-197328, which hasn't yet been resolved. If you feel that this issue is affecting you, feel free to vote for the duplicated ticket, to give Mojang a basic idea of how many people are impacted by the problem. Just to further inform you, this will not determine how quickly the bug gets handled or fixed.
Please provide a screenshot of this occurring with the F3 debug screen enabled.