After much agonizing on how connect the limit switches to a Buildlog.net Rev 3 shield, I finally decided to solder a connector arrangement directly to the board. I used 24-gauge solid wire as the male pins that fit into a standard R/C connector. The pins are bent downward, making the installation relatively clean.
The image shown is for digital pins 9,10 and 11. A similar arrangement was incorporated on the other side of the board for 5 volts and ground.