My "notes" are just messages from you but here it is.
Geiger's debugger was moody about the blackbird. Here's the changes for a hex editor.
029882 - 56
029886 - 80
3FF821 - 56
3FF825 - 80
0FFBB9 - 56
0FFBBD - 80
Change any event code referencing 7F00BA bit 01 to 7F0056 bit 80.
I'm specifically using 7F0056 bit 80, which is labeled as unused. It's moving the items, since Magus needs his data to follow the others in the code.
I did another glance at the code, and it looks like you'll need to move the rest of the flags off of 7F00BA. These are all handled in events 0F3, 16B, 16F, 170, 171, 172, 173, 174, 175, 176, 177, 178, 179, 1B0, 1BA, 1BB, 1BC, 1D3, 1D9, and 1D9. You should be able to move them to unused flags on 7F0056 and 7F005A