Also some hum issues. ? Anyone got any ideas?

I just put it together. The tubes aren't even burned in yet. I'm so far pretty happy with the way it sounds but there will be a bit of tweaking however. My first objective is to fix the presence and reduce the hum. a couple of other comments on what I want to achieve. I would like the amp to clean up a little quicker when I roll off the volume on the guitar and maybe a bit cleaner overall. I will be experimenting with tubes, but I would like to get as much out of the amp first. I use most of my amps for recording so hum is an issue. Thanks ahead of time to anyone that can help.

Well, their layout and their chassis pics are different on the Presence control.  Which does yours look like?

I would disconnect the Presence from the OT tap outright and take it out of the equation, if the amp is still bright, then it isn't the Presence control (setting Presence to 0 is the same as having no Presence at all)

This starts to get pretty confusing (at least it does for me).   So I assume 1/2 of your phase inverter was not working.   Now that you have both halves going, you have more trouble than you did before.   You are probably going to need help from somebody better than me but, I would say you need to check your wiring again.   Verify that you have the proper volt readings everywhere.
Double check all of the "under the board" wiring and be sure that you did not miss something.   Make sure you judiciously check ALL of your work, from the input jack to the output jack.   
Bad oscillation on a newly wired amp can be caused by the OT.  You might try reversing the brown and blue wires fro you power tubes to the OT.   You will know if that was the problem or not.   It will either fix the oscillation, or make it 100 times worse.  Other than that, I do not know what to say.
Your original complaint was that your amp was too bright.   After jumping the PI cathode with one wire, you now have trouble with oscillation.   So all I can say is:
Check all of your amp against the layout, and take your time. 
You really need to check all of the important voltages throughout your amp.  I realize you do not have a schematic, maybe Nik can help you put with some expected voltages.
Flip the OT wires and see if that helps your oscillation.
Reconnect your presence.
Good Luck

No, the brown and blue wires were the problem.   They are not compensating for something further back in the circuit.
As far as hum..... I would triple check all of your ground connections.   Make sure you have continuity.   Re-flow any joint that looks the least bit suspicious.   Other potential problems are your ground systems themselves.   Also, as always, lead dress can be critical.   Moving a wire 1/4' inch can make a big difference.    Again, make sure all of your ground connections are short, tight, and non-invasive as possible.   You may as well start chop sticking, see what you can improve. 
That is probably about all the help I can be for you.    You may need the service of an amp tech.   Posting some pictures may still prove to be a big help.
Good Luck

Issues resolved. Thanks everyone