To sharpen with any belt, stone, etc, you should essentially do these steps each time:
1. Sharpen side A until you form a full length burr on side B.
2. Sharpen side B. This will very quickly remove the burr on side B. Keep going on side B until you form a full length burr on side A.
3. Remove the burr from side A.
Repeat for each belt in your progression.
If you do this with every belt, you'll get a very sharp and refined edge. From around 300 - 400 grit on up, once you remove the burr in step 3, you should be shaving sharp and phonebook paper slicing sharp.
If you want to save time, step 3 above can be done by the next finer belt. I.E., you'll remove the burr from the last belt you used, with the current, finer belt that you just put on the machine.
As you progress though the belts, the burrs should form VERY quickly. It usually happens in one pass for me, but I usually do more in order to polish out the scratch pattern from the previous belt. The burrs from finer belts will get smaller and smaller as you go. It's a natural consequence of a smaller grit abrasive. By the time you get to the 6000, the burr from the previous belt should be rather small. I'd recommend removing that burr, as best you can, before moving to the 6000. Even before the 6000, you should have an *extremely* sharp edge that's also very polished. Not quite as mirror polished as the 6000 can make it, but it should be quite impressive by most people's standards.
I hope this makes sense. Feel free to ask if you need clarification or if I didn't cover something.
Thanks,
Brian.