I know this is an old thread, but I'm having the same problems.
The symptoms are checksum errors with a read hd, for CF the machine doesn't see any partitions in the early boot menu. However everything works fine if I remove the apollo, or plug in my 030 card. I don't think it's the memory as removing it doesn't help.
Did anybody find a solution to this, and what are these motherboard timing fixes that were mentioned. I've got a revision 1B board.
Many thanks
James