UPDATE
Feb 8, 2012

As best as I can determine, this problem is either style- or song-specific. Amplitube settings are saved when I use _J140_GB Jazz Swing Combo and "Ba-lue Bolivar Ba-Lues-Are", but lost when using _JAZZNYC Jazz Slow Ballad w/NY Piano and "Polka Dots and Moonbeams". I've confirmed these observations over several days and BIAB sessions.

I've been pressed for time the last couple of weeks, so I have not switched the styles around to confirm my suspicions nor have I explored other realtrack styles with guitar to determine which of them retain/lose Amplitube settings.

I hope to delve further into this later this week (read=weekend).

Bob aka jazzwombat