@adolescent
I had a similar problem as you, but I got a guru at
setpatch. I had to replaced c:setpatch &
devs:amigaos rom update with the ones in BB1 to get it
working. I know I have something from 3.1 that's causing
the problem, but I have no idea what it is yet. I know
this because if I do a fresh install of OS3.9 & both BBs,
I can boot with no problems.
Just re-install BB1 & you should be back to where you started, or you could try replacing those 2 files
with the ones in BB1 to see if that works.