What was done:

1) Turn off MC1, MC2, MC3, BS, ITMX, ITMY, PRM, SRM watchdogs.

2) Turn c1sus computer off (sudo shutdown now)

3) Go connect monitor and keyboard to c1sus.  Turn c1sus on.

4) Hit "del" key at the right time to go to setup (BIOS).

5) Go to BIOS advanced tab, CPU options, enable Multi-threading.

6) Hit F10 to save and let the computer continue booting.

What went wrong:

Once c1sus was up, I noticed several red lights and dead keep alives for the c1sus models.

Typing dmesg on c1sus revealed many messages like:

[  107.583420] c1x02: cycle 33737 time 20; adcWait 10; write1 0; write2 0; longest write2 0
[  107.583771] c1x02: cycle 33760 time 19; adcWait 11; write1 0; write2 0; longest write2 0

This indicates the Input/Output Processor (IOP) is not completing its duties within the 15 microseconds (1/64 kHz) that it has.  These lines indicate its take 20 or 19 microseconds.  (I saw messages ranging from 16 to 22 microseconds).

So this seems to agree with Rolf's observations that hyperthreading can cause a 5-10 microsecond increase in computation time.

So the next thing to do is modify which core the codes are running on, and try to get them paired up on the same physical core.