Freshwater,
I believe you have a DPP44, Dish 500, and a Dish 1000; not a SuperDish.
SuperDish 121 = 119, 110, 121
SuperDish 105 = 119, 110, 105
Dish 1000 ---- = 119, 110, 129
If you really did have a SuperDish, I don't think the 2000 is capable of receiving 121 and 105, even if it was on the Sat Input 1, 2, or 3.
Also, you called it a 2000/HD, but I don't think there was a 2000 High Definition receiver.
Hopefully clearing the switch matrix as RandallA said will help. If not, I think I would then try his instructions again, but also disconnect the sat input from the 2000 and the ViP 622. After running the check switch, connect only the 311 back up and run the check switch.
When disconnecting cables, you should have the DPP44 Power Inserter unplugged.