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Start with what you are trying to make. Every page opens with the answer, a working example, and when you would reach for it.

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How-to

Make shapes
Everything starts as a shape.
Change shapes
A primitive gets you the rough thing.
Combine and cut
Most things you build are several shapes treated as one.
Repeat things
A hundred rocks, a ring of pillars, a fence that keeps going.
Vary copies
Scatter twenty rocks and they are twenty of the same rock.
Place things
Getting a thing to sit on another thing sounds like the easy part and is where most graphs first go wrong.
Break things apart
Rubble, debris, a smashed crate, a wall with a hole blown in it.
Select parts of a mesh
Sometimes you want to change part of a shape and leave the rest alone.
Materials and appearance
Colour is the cheapest way to make something look finished.
Make things move
A spinning pickup, a bobbing gem, a door that swings, dust drifting.
Build reusable systems
The second time you build the same thing, stop.
Addressing a grid after deleting part of it
Index counts the points that are actually there.
Flat colours on a rough surface
Face sampling gives each face one colour.
Pushing faces out, as a region or one at a time
Inset with Faces Move set to As One Region, Thickness 0 and a non-zero Depth pushes a whole connected selection out as one block.
Sitting a part on the ground
Use Place On with the Base input left unwired.
What counts as one face
A cylinder with Radial Segments 8 and Height Segments 3 is 8 faces if you are colouring it and 24 if you are selecting on it.
Why a wire into a value box does nothing
Dragging a field into a number param connects, greys the box out, and changes nothing.

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Reference

Node reference, 133 nodes What each node does, what it takes and what it gives back.