Tricky,
I'm reading my manual
and I forgot to say that there are other model
the fastest:apollo 1260/66mhz
check what says:
Jumper CLK settings
68040-cpu installed position 040
68060-cpu 50mhz installed position 060
68060-cpu 66mhz installed position 040
so....maybe you have a 68060//66mhz that's why your card work only on jumper set on 040 side
btw,which 68060 library are u using?