Hi Bryan -- thanks for the report.  To make a copy of a floppy, with a boot track, use "diskcopy".  I think the syntax would be 

 diskcopy A: A:

Here is the help output: 

   Copies the contents of one floppy disk to another.

DISKCOPY [drive1: [drive2:]] [/V]

  /V   Verifies that the information is copied correctly.

The two floppy disks must be the same type.
You may specify the same drive for drive1 and drive2.