The following was tested with Arduino 1.8.5.

You'll need:

• A 5V USBtiny-compatible AVR programmer similar to this one. The Adafruit USBtiny should work too but isn't tested.
• A tabbed 6-pin IDC cable. One typically comes packaged with the USBtiny-compatible board.
• A populated PA-328d PCB.
• One or more ATMEGA328P-PU ICs that you want to burn the Arduino bootloader onto.

• Make sure the jumper in the upper left corner is installed.
• Plug the tabbed 6-pin IDC cable into the receptacle.

• Plug the tabbed 6-pin IDC cable into the ICSP receptacle.

1. Under Tools > Board: select Arduino/Genuino Uno.
2. Under Tools > Programmer: select USBtinyISP.

It doesn't matter if a sketch is loaded in the editor.

Plug the USBtiny compatible in to your computer via USB. Then for each ATMEGA328P-PU you want to burn the bootloader onto:

1. Insert the ATMEGA328P-PU into the ZIF socket and lock the latch.
2. In the IDE, select Tools > Burn Bootloader and wait a few seconds for the process to complete.
3. Unlock the ZIF socket and remove the ATMEGA328P-PU.

Repeat the above as needed for additional ICs.