John summed that up nicely, but if you still have questions about anything he said, feel free to ask.
I wish I had a working camera in my hands, I could take some pictures of a couple things to help clarify.
I have a hood alignment thing that is like the Integy one that was linked, but without the handle. Supposedly the handle gives you greater leverage for those 'extreme' brush hood tweaks, where you're literally bending the metal, and on some Integy motors, I've had to do that. When starting from scratch and building up every part of the motor I'll use the piece that goes from bearing to bearing along with the cross bar that goes from hood to hood, it forms a 't' in the motor. That's just to get everything close to aligned. It never really gets things where they should be, it might get the hoods perfectly straight compared to each other, but a spinning motor causes the brushes to shift in the hood, and thus they aren't aligned to the comm anymore. So we tweak the hood, we angle the hood, so when the motor is spinning the brush is hitting the comm right in the center.
I just looked to see if I took a picture of the brushes on my newest motor, and I did! Hah! Good job, me.
I got a new Br00d not long ago, and as usual, took it apart and looked at it all, then reassembled it and began the brush seating process. I stopped just short of it being fully seated and snapped a picture. Afterwards, I kept breaking it in, then took it all apart again and skimmed the comm on the lathe, cleaned it all up, and put it all back together again.
You'll notice parts of the serration aren't as worn as other parts, so at this point I'm not done with the break in yet. Also notice the mess in the endbell. Brushes are typically made for 7.5 mil comms so when breaking them in on a ~10 mil comm, you really take away some material before they're fully seated.