Here's how I understand it.
The profile is all of the settings for your printer. So this is a big file that contains a lot of information, including the auto-configure data. You can view all of the data in the profile by going to File > Export FFF Profile, and then opening the file in a text editor (it's just normal XML). If you look at the bottom of the XML file, you will see all of the different auto-configure settings, which is also helpful so that you know what is being changed when you select PLA, ABS, etc.
Ideally, I would say that you should only have one profile per machine. Then you would just embed all of the special adjustments that you need for different material or quality settings through the auto-configure options. That's how the S3D profiles work, so I imagine this is the intended way to use it. If you've never played with adding new auto-configure sections before, there's an easy video about it here:
https://www.youtube.com/watch?v=JFynhtvPBPQ
So then finally, you're left with processes. The processes are used to define how you want the parts on your build platform to be printed. For many people, I imagine they are only using a single process (meaning the same settings for all parts on the bed), so in that case, there's nothing else you need to know. Just edit the settings for that single process and you are ready to print. But some more complex builds might require multiple processes (such as different settings for different parts, or even different settings for different sections of a single model, explained here:
https://www.simplify3d.com/support/arti ... f-a-model/). For these more advanced prints, you may combine multiple processes together so that you can do lots of different things at once. But again, if you aren't doing this, then just stick with 1 process only and don't worry about it.
I also like the advice that was given here:
viewtopic.php?f=8&t=6347&p=27551#p27551
CompoundCarl wrote:if you have lots of extra processes loaded that aren't required to manufacture the part (i.e. aren't being selected when you click "Prepare to Print"), then you're probably doing something wrong.
That's a good rule of thumb to follow. The profiles are already permanently saved (using the "update profile" button, video about it here:
https://www.youtube.com/watch?v=eZ7HFPY1wog), so you don't have to worry about deleting a process. Those should really be temporary things that you add or configure based on the specific part you are printing. Lots of things like the configuration assistant and the dual extrusion wizard will actually replace all of the processes you have loaded (since they automatically setup everything for a specific type of print), so again, you want to make sure the processes are just temporary and that you're saving your permanent settings that you need to keep as a profile.
There's a few other threads on the forum about this same topic (I linked to one above), so those may also help explain things furhter