BTW: keep your actual 68040.library (/me thinks you have a 68040 or 68060 CPU, the one supplied in the disks are a bit old, even incompatible with your H/W).
And that's could a cause of the misbehaving of all things: you need the image ROM matchs your actual ROM and the processor choosed in emulation needs to be exactly the same, too.
Bear in mind that are two different types of 3.0 ROMs: for A1200 and for A4000/A4000T.