Like grantspain was saying... sounds like it's still an issue in the psu.
The tube heaters (neck glow) power is derived from the flyback, but since you've replaced that already, then you need to verify that it is getting proper voltage from the psu section.
B+ voltage is the key to narrowing it down.
Think of it as the "bridge" between the psu area and the rest of the chassis.
Measure the B+..... if it is not correct, then you defineately have a psu issue.
TP-91 should be at 120V DC adjust with R909 (VR909).
If this is higher than like 138V , then the monitor goes into shut-down.
Check power regulator X04 if readings are off also. (2SC1106)
Check the HOT itself out of cicuit to be sure it hasn't blown. (2SD870)
The casing is NOT shorted ground although when I checked the two pins of the HOT they were connected to ground. I desoldered these wires and then checked just the wires to ground and they are shorted there as well. Both of them are connected to the chassis near the HOT without even being connected to the HOT. I believe on the back of the PCB they are labeled as S3 and S4. Is this correct or is another component causing this?
Did these show as being shorted together? (wire to wire)
Ther are a couple diodes to double check, D502 - D503 and there also appears to be several critical caps in that area to look at, C512 through C516.
Also on a side note... anything on the scematic having an ( ! ) should be checked. For instance there's a fuseable resister FR901 in there that may be open.
(assuming I am looking through the right manual
http://arcarc.xmission.com/PDF%20Monitors/Electrohome%20G07-CA0.pdf)
Hard to say without actually probing around the board itself, could be way off base here.
(been a long week, I'm just rambling now)