I shorted the inputs and ran the outputs into Audacity and ran the Spectrum Analyzer...the hum shows up at 60hz @ -62db /// 120hz @ -63db and the rest of the harmonics ( 180hz, 240hz, etc) are much lower...around -80db
And what "clear" (without anything connected) Audacity shows in the spots?
... which wires do I twist together?
I'd disconnect Blue\Yellow, Brown\Yellow, Black\Red, White/Black from the PCB, pull them above case (i.e. not go inside). The same thing I'd do with Green/Yellow and Violet wires as soon as they also not connect to the anything (the lattest wires you can cut short if you do not plan to use the transformer in different installation).
Then, twist together Blue - Brown pair, Black - White pair, 2 Reds - Red/Yellow (3 wires). 2 Yellows - Yellow/Black (3 wires), a pair of Greens. The most dangerous is the 2 Reds as soon as the max voltage between them is rather high (550*1.414 = 777V, in reality - even more, because you do not use full current capability of the transformer), so maybe it is better to use some addition heat-shrink tubes on them just in case.
Also, there was a good post from tubesforever where he explained using the grey wire from the transformer and hooking it to the star ground. He then explained that there was 4 wires running to the star ground...1) IEC Ground 2) PCB Ground 3) Transformer and 4) the Chassis
My question about this, is would you really need a wire to the chassis if the star ground is on the chassis itself anyways? Should the transformer be isolated from the top plate of the chassis if you are running the transformer ground wire to the star ground?
Good questions and not very easy to answer. If you follow JH layout - you have already had 1, 2, 4 connected to the single point (the Chassis), so you should only add the Grey wire from the transformer to the point. About isolation of the transformer - I don't think it is so nesessary, but it's better to try both ways and chose the better. I'd check also if all case parts have good electrical connection to the star-ground part of the chassis.
If you follow numerous discussions here - you may know, that Cornet 2 is very sensitive to placement. There are also problems with interconnects and tubes reported. Replacing (upgrading) capacitors in most cases aggravates the problems and need carefull wiring and placement of the new parts.