How do I keep my inventory items well-organized and tidy?
In my experience, no matter what the size of the space, electrical engineering = mess. You spend a day or two every couple of months cleaning and organizing and making everything look nice. And within a week, entropy takes over.

For resistors, capacitor and other small parts, I prefer binders with plastic sheets that are subdivided. Similar to those used for baseball cards or coin collecting. I find they take up less space and allow you to find what you need with a quick glance. Especially if stored in value order.

For bigger components like ICs and larger capacitors, I use plastic bins with adjustable subdividers. Same principle as the binders but the bins work better for parts that are less "flat" than resistors and certain types of capacitors.

As for "stock control" I've never had the time to implement a good system. If I'm out, I just jump on DigiKey or Mouser and wait for the new parts to show up. But you can go crazy trying to emulate a larger shop and get a barcode reader and print out your own barcodes. Then you just need to find or write software to manage everything. For home use though, I think that inventory management is a little overkill.