Really Useful Boxes are excellent. The best feature for me is that the lids are raised, so you have some room that's slightly higher than the rim of the crate. Sure, buy a bigger crate, but it's nice to pack things just about level and not worry about one annoying part poking up.

I've switched to UTZ Rako/Euroboxes for longer term storage. I even bought a beat-up dolly so I could easily transport 60L boxes around. They stack, they're divisible (e.g. 2x30L on top of a 60L) and the smaller ones fit neatly into a KALLAX cubby. You can buy them used for cheap, if you're willing to spend an afternoon scrubbing factory dirt off them. But they're not significantly pricier than Really Useful.

There are other suppliers like Auer, who make all kinds of interesting variations like toolboxes and latching/lockable boxes, but can get really expensive. You can get insert containers for them, but same problem: no transparent lids, only generic gray unless you want to buy 100.

I've been lusting after some of the Sortimo boxes that Adam Savage recommends, but I can't justify 50-100 quid per compartment box.

As for the original article... I like the idea of dots, but I would try a gridded label with sharpie marks. Having worked in a lot of workshops and labs though, boxes are not efficient. You want a good rack/drawers for things you use all the time (tape). I do like one box per project for convenience, which is often more useful than a box with generic grouped parts. If you really need to, you can do things like cut SMD tapes for each project. This way is much easier to drop back into something you only have time for on the weekend, and it's also what we would do in hardware shops (single sorted organizer with the BOM items for a project).

I do agree about the hardware side being surprising. When I was working on electronics for work, having a 4 channel scope was indispensable. But most of the time, debugging on chip/breakpoints are enough. I switched to a 4 channel mixed signal Picoscope.

(Someone else mentioned kitchen containers. I spent some time in a professional kitchen which hooked me on Cambro-style containers, or whatever Nisbet's sell in the UK. Also standardized alu sheet pans and matching silicone mats for baking.)