I'm having the very same problem as several others with the sidebars not showing up on Buddypress pages. Based on suggestions in other threads, I successfully deleted and reset the "bfa_ata4" settings AND followed Rashell's instructions to copy the ATA header into the buddypress-generated pages. I'm using Wordpress 3.0, ATA 3.5.1, Buddypress 220.127.116.11, and Buddypress Template Pack 1.0.2.
I really need the sidebars to show up on my buddypress pages. Has anyone solved this yet? Would you share how you did it please?