i do not understand what you want.
CN301
pin 13 is a pin connected by the FPGA and is not connected to one of the GPIO pins. It gives you the possiblity to control the trasmit mode outside pihpsdr.
pin 14
is a pin connected by the FPGA and is not connected to one of the GPIO pins. It gives you the possiblity to connect a straight key and doing morse outside pihpsdr.
(your remark about pin 14 is not used for direct key is true for control via pihpsdr but for a direct connection)
pin 5 and pin 6 are pins connected via the FPGA to the GPIO pins and can be used for doing morse code via pihpsdr.
Look at the schematic you will find the wiring.
As said i am not sure which goal you are aiming for but i hope this additional info is of any help.
73 Johan
PA3GSB