Twice I had the same problem on my multisite WP: after activation of new plug-in, Atahualpa settings disappear. Not from all sites but from many of them.
Is it possible to restore only bfa_ata4 string from wp_options table?
I mean that I have daily backup and can restore only wp_options table to local MySQL, then I can copy a content of bra_ata4 and paste to my production MySQL in the same string of the same site. I tried to do this but Atahualpa each time restores the values to their default values.
Or there is a tool that can convert bfa_ata4 string value to Atahualpa settings that lately can be imported by standard way?