Tag Connect is a neat new in-circuit programming cable that allows you to shrink the footprint of your programming pins on your pcb. They offer quite a few sizes of the adapter cable, and even have a version that will work with the Adafruit USBtinyISP. They offer pre-designed footprints for most major CAD programs, including Eagle and KiCad. That other little PCB in the photo above is a retaining clip. This allows you to hold the programming cable in place on the board hands-free. They offer 6, 10, and 14 pin versions, and cost about $30 per cable.