How to create a circuit drawing that allows easy mapping for setting up a breadboard
A schematic and a wiring diagram are two different things, so don't try to make one drawing serve both purposes.  Before you wire anything, you have to understand the circuit.  That means starting with a schematic.  This is where you arrange the drawing to do the best job possible of explaining the circuit.  Don't even think about layout at this stage.

Once you have a schematic that represents the circuit you think you want, there are various ways to proceed.  Usually a piece of software that understands the connections implied by the schematic will guide you thru placement and routing of a PCB.

However, you seem to want to wire up a breadboard instead.  What I do when I want to test something on a breadboard is to start with the schematic as usual, then print that out and wire up the breadboard accordingly.  I work thru it one connection at a time.  The schematic shows you the pin numbers, which is what you need to wire up the connections.  Circuits you can put on a breadboard are small, so doing the layout as you go along wiring it up is no big deal.

I suppose you could make some sort of wiring diagram from the schematic, but I've never bothered with that.  It really isn't a problem in my experience.  The important thing is to be able to see the circuit, which is what the schematic allows you to do.  Perhaps you could mark off connections on the schematic as you make them on the breadboard, but I really don't see the point to a special dedicated wiring diagram for the breadboard.

The point of a breadboard is to allow for easy editing of the circuit.  Having two diagrams to keep up to date with the changes will get unweildy fast.  Crossing out and adding parts with a pencil on a schematic printout makes a mess after a while if the changes are major.  Then you need to go back and update the schematic on the computer anyway.  Having to update yet another diagram would be tedious and lead to confusion when the inevitable mismatches occur.