I'm probably misssing it or searching the wrong things, but I noticed after updating Atahualpa to the newest version, there is a theme images option and there is this text-

"For MULTI SITES, you should choose the 'wp-content' option and give each multisite a unique folder name like multi-01 and multi-02"

I understand by this that theme images such as backgrounds, headers, logos, favicons can be stored separately for each site using the theme in a multisite install. What I am unclear on is can I use a single version of Atahualpa across all of my sites but with different stylings? As it is right now, I have multiple copies of Atahualpa, one f reach site, that have been renamed and must be updated manually to have different stylings.

Yes you should be able to because each multi site will have its own set of database tables and the atahualpa options are stored in the wp-options table, so there should be a different copy for each multi site.

Okay, next time I need to think for a minute. Works like a charm, though I did have to use a little more thought to get my favicons to show up.

though I did have to use a little more thought to get my favicons to show up.

could you explain this? was there an issue?