Right, I picked up an A600 + 1Mb upgrade (kickstart v2.05 (37.350)), and also got a HDD for it (1.4Gb).
The first strange thing I noticed was that the HDD had WB3.1 installed, and after fitting the drive and turning on the Amiga (just to see what might happen) it actually booted up and appeared to run. Is this right? I was expecting some kind of error message telling me I had the wrong KS version (I thought that WB3.1 would only run on machines with KS3?)??
Anywho, I ended up formatting the drive as I didn't trust WB3.1 running with a KS2 ROM.
WB3.x will work with KS2.x, I've done it via emulation and a real Amiga, although in order to install it, I had to use emulation and an Amiga formatted hdd, nonetheless it worked fine.
As for your main problem, sorry, I have no idea.
BTW...welcome to A.org :-D
