What you clicked is an english tutorial which was created and hosted by a different author, unfortunately it's not availabe at the moment, I'm gonna ask the author if he can send me a copy. The other tutorials should work though and there's a link to the 3.x version of the docs....pretty old but to get a basic understanding it'll be ok I guess.
Now to auditing....If you want to audit software lists you have the choice between two modes:
- the combined mode (you're asked after a MAME import) which is a beast to setup and a bit hard to handle
- the split mode. Simply keep 1 profile per software list (e.g. drag'n drop the files from MAME's hash folder into the profiler). The batcher allows scanning multiple dats and a bit of automatic rompath setup.
Now you've chosen the tough way...

.....well..for this, you need to specify unique system default paths for each software list. The BIOS/Standard/Devices/Mechanical ones can be identical, the SL ones NOT.
Autoassign works only if you actually already have sets in the single rompath folders. It checks and counts the found files and tries to match the best count per folder to a software list. If no match is found it will always take the 1st rompath. So for example you have an empty Atari2600 folder, a C64 one, an empty Amiga one, and got 3 Amiga sets in the C64 folder, it will fail. It will count 3 for the Amiga Software lists and so the C64 folder will be assigned, the rest don't have any counts, cmpro will assign them to the 1st rompath...
You see, auto assign only really works if your collection is a bit presorted.
To sum it up, usually it's easier to keep 1 profiler per software list. If you select more than one profile in the profiler, you can load them in a batch run (with additional options)