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But do make sure to read the installation instructions and be very careful with it. The use of mod managers has made things a lot easier for many, but you should in return expect manual installations to be more complicated than before and to be possibly more prone to errors.
-place files where they belong (most in Data, read fomod-xml when applicable)
-activate plugins in plugins.txt located in your local-folder/Skyrim (load-order top to bottom)
Fully manual becomes a bit tedious when you a beyond few dozen mods though, so you might consider at least some automated assembly procedure to rebuild the game when necessary.
I myself do not use mod-managers, but I had to implement some simple scripts to move files around automatically just so I do not have drop things by hand.
You have the Creation Club and a section called "Mods" which isn't the same at all, but yes it requires a Beth.net account.
On the other hand, still not very useful as full-manual without at least automatic assembly cuts short way to fast in terms of usability. And with automatic assembly there is not need to do manual plugins.txt editing anyway.
It is very simple for new users, which is both it's strength and weakness. You would basically just need us to explain the UI and how tool links work. That's it.
You can manually install mods, but why bother going through the effort of fixing files, replacing loose files manually and checking all the mod updates manually?
Each their own, but it really would not take long to figure out.
Basics:
You have two main views. Mods view, where your mod folders are and resource conflicts are solved + Load Order view, where your plugins are and record issues are being solved.
You can download mods directly through mod manager. Alternatively (which what I do with both MO2 and Vortex) you can download mods manually to specific location and use Vortex to install files from had drive. It comes with browser.
Vortex pretty much sorts order on it's own - in good and bad. For most cases it gets it correct. You might still want to run LOOT, because it's report in UI gives a horde of information about potential issues and available patches.
Content is not actually installed in to your Data folder. Instead Vortex installs all content in to another folder and deploys links to Data folder. That way your folder always remains mostly clean, save from xSE and ENB files that you might have thrown in to it.
Then hit "Play" (or SKSTE64 launcher) and start playing.
And overall, it is NOT recommended to manually mod Skyrim. You technically can do it, it's just not something you really should do.
If you ever install something that causes crashing, you can no longer load the game to fix your mistake.
Previous Bethesda titles were at least smart enough to put that feature in the launcher and not the game, for that very reason.
Full-manual is indeed only viable for a few mods in general (although I do not buy the "forget what you installed" sentiment as only a clinical imbecile would drop mods in without having their mod-assembly being stored somewhere separately).
However with a tool as simple as automatic assembler (a simple script to take whatever mods you placed somewhere and copy them where they should be in correct order + create plugins.txt) mod-managers are not really needed for anything.
Except of course tools like Loot are always good to consult with at least, as re-implementing that is quite not as easy.
Well, that is how I do it, and have been for ten years. I run 200 mods now with no SKSE or SKYUI, every time I try those it screws up. I am my mod manager. If it messes up, reorder mods or swap some out to get a satisfactory result. You will be the judge of how it works.
GO FOR It.