Do plugin mods overwrite loose file mods?

[Deleted4610270User]

I decided to give F4 another try after upgrading my rig, but I can't seem to load both plugin mods and loose file mods at the same time. If I select/tick all listed plugin mods in Main Menu Mods section, then loose-file-only mods, such as Vivid Landscape (Textures folder), do not load. If I reset everything, then, as a default, some of the plugin mods in Main Menu Mods section are not selected/ticked (yet others are), in which case loose-file-only mods like Vivid Landscape, do load, but Enhanced Metal Crates / Luxor8071's HD Texture Pack plugin mods don't...

I already created Fallout4Custom.ini with:

[Archive]

bInvalidateOlderFiles=1

sResourceDataDirsFinal=

My DLCList.txt content (direct copy/paste):

DLCCoast.esm

DLCNukaWorld.esm

DLCRobot.esm

DLCUltraHighResolution.esm

DLCworkshop01.esm

DLCworkshop02.esm

DLCworkshop03.esm

Dynamic Lights and shadows Overhaul.esp

Enhanced Metal Crates.esp

FO4 Landscape Overhaul.esp

HDReworkedProjectRevised.esp

Interior - Buildings and Industrial HD.esp

Luxor8071's HD Texture Pack AIO Pt1.esp

Luxor8071's HD Texture Pack AIO Pt2.esp

PA-Skins.esp

Project Reality Footsteps FO4.esp

The Eyes of Beauty Looking Stranger.esp

The Eyes Of Beauty.esp

UltraInteriorLighting.esp

Unofficial Fallout 4 Patch.esp

ValiusHDTextures4K.esp

VUWR.esp

My Plugins.txt content (direct copy/paste):

*Unofficial Fallout 4 Patch.esp

*HDReworkedProjectRevised.esp

*The Eyes of Beauty Looking Stranger.esp

*The Eyes Of Beauty.esp

*UltraInteriorLighting.esp

*Interior - Buildings and Industrial HD.esp

*Project Reality Footsteps FO4.esp

*Dynamic Lights and shadows Overhaul.esp

*PA-Skins.esp

*VUWR.esp

Last time I played the game was back when it was just released and I don't remember there being DLCList.txt, only Plugins.txt.

- What's the difference between the two?

- How can I make both plugin-based and loose-file-based mods work together?

- Can loose file mods and plugin mods over-write each other? If so, which ones get priority?

- How can I change load order of loose-file-only mods?

- What is the purpose of the Mods subdirectory in F4 game directory? AFAIK, mods go into Data subdirectory, not Mods subdirectory...