A similar thing happened to me after I had installed ToB and the latest Bioware patch.
I've got a Voodoo card, and when I installed SoA I had to change some video settings to get it to work properly. When I installed ToB and patch, my special Voodoo settings got lost and it started crashing in various places.
When I restored the settings everything worked fine again.
So you may want to check your settings in case you've lost some changes. If you haven't, maybe someone else can suggest something.
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