I think Grothendieck's proof of ZMT (in EGA IV-8) -- which I find fantastic -- is itself a great source of intuition, at least when presented in outline. (Here I mean the one that a quasi-finite separated map factors as an open immersion and a finite morphism.)
Here's the strategy: let's say you want to show first that $f: X\to Y$, a quasi-finite separated map between nice (e.g. noetherian) schemes (or finite presentation otherwise) is quasi-projective (or even quasi-affine). This is the basic step, after which the version of ZMT in Hartshorne and a little more work gives you the full result (see e.g. EGA III.IV for this).
OK, so this doesn't seem obvious: you have a map of schemes that could be very pathological, but still you're claiming that $X$ can be "compactified" to a projective $Y$-scheme. To see this, we need to get an ample line bundle on $X$; the claim is that $\mathcal{O}_X$ works, which again is to say that $X$ is quasi-affine. How do we see this? We work locally on $Y$. This is part of a simple idea developed at length by Grothendieck that to show that a certain local property is true for a map $f: X \to Y$, you can just check at all the local rings after base-change (and is itself a property of the "noetherian descent" formalism: if a property is true on an appropriate inverse limit, it descends (or ascends?) to being true at some finite stage).
Thus one reduces to the case where $Y$ is local. The next idea is to make $Y$ complete local---this is a consequence of faithfully flat descent. The point is, it's not hard to show that anything quasi-finite over a complete local ring is the sum of a finite morphism plus something smaller. So, the result for $Y$ complete local and for the $X$ finite over the closed point is easy commutative algebra. The rest of $Y$ follows by noetherian induction.
In other words, the point is to reduce a) reduce to the case of $Y$ local, by noetherian descent b) reduce to the case of $Y$ complete local, by faithfully flat descent, and c) use a clever inductive trick based on puncturing $Y$ (which is very geometric---puncturing $Y$ at the closed point is not something you can do purely algebraically!). So, maybe the intuition I take from this is that something which is true over complete local rings has a good chance of being true in general. I'm afraid this isn't all that geometric -- maybe one way of saying it is that if something is true analytically locally, then it has a good chance of being true algebraically locally.
(The proof of the full strength ZMT in EGA IV-8 is, I think, the same sort of idea, though added with some use of harder commutative algebra -- properties of excellent rings.)
Another illustration of this technique of reducing to complete local rings (and induction) is in SGA I, expose IX, Theorem 4.7: finite surjective morphisms of finite presentation are morphisms of effective descent for the etale site. In expose VIII, sec. 6 the above argument for half of ZMT is given (in a much more abbreviated form than which it appears in EGA).