@kverdon - It might not hurt to do a full factory reset of the command station.
From digitrax troubleshooting pages:
Follow these instructions to work with Option Switches in your DCS100/DCS200 and DB150 command station or booster:
1. Place the MODE toggle switch in the Center OP position
2. Press the "SWCH" key
3.
Enter 3, 6 to clear the slots or 3, 9 to reset the unit to factory defaults
4. Press the "c" key (which is also the Cloc key).
5. Now go back to the command station/booster and move the MODE toggle switch Down to "Sleep" and then up to "Run".
If that fails, I'm sure digitrax can help you out. Looks like they can repair a DCS100 for a $35 flat fee.
http://www.digitrax.com/support/returns/step1/