yes there is a fault with amiga 1200 mbs well ones before Amiga Technologies A1200
that l know of l had 2 my motherbaords fited with few mods to fix this.
it should be okay you take card in and put it back again or reset it . used to be if you had over 4 megs ram on pcmcia slot with ram card . but your talking using it as hard drive
you can use them un mod l think know from memory one the mb still did after being done
l cant been issue though as l used squirrel and a pcmica network card am sure your cf card is fine thought