Matt,
I use --alt-preset standard (well, OK, I use extreme, but it's the same thing), and I use it with Digital Secure and I always get good, clean rips (can't tell a difference between them and ones done (in the past, before MC) with EAC. You configure the file naming conventions in the "File Naming & Location" section of "Tools", "Options..." There's a predefined list, or you can build your own. I use, just for example:
Directory Rule - [Album Artist (auto)]\[Album]
Filename Rule - [Artist] - [Album] - [Track #] - [Name]
In case you don't know, Album Artist (auto) will be the same as Artist for albums that have a single artist for all tracks. But if you have a compilation album, and you want the Album Artist to be "Various Artists" or something like that, and then you want to fill in the Artist value with the individual track artists, the Album Artist (auto) value will be the same as the Album Artist value, as long as the Album Artist value is the same for all tracks (i.e. regardless of the fact that the Artist value for each track is different). So, the naming conventions I listed above cover both Albums by a single artist, and albums by Various (Multiple) Artists with individual track artists because all tracks will go into the same directory, but the track names will contain the individual artist names for compilation CDs.
Hope that helps...
Oh, and by the way, the lame parameter line for -aps would look exactly like this (must have the %IN %OUT; don't change that):
%IN %OUT --alt-preset standard
Wobbley