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Is the pilot flame strong? you gave it a minute or so to heat up before you released the button/dial?
How much of the thermocouple tip is in the pilot flame? did you use any pipe dope on the thermocouple connection at the gas valve?
Not clear on the last point. 3/4 of the tip is not in the flame?
Try moving the thermo up a bit so the top 1/3 is in the flame. Do you have a multi meter that can read DC milli volts?
Not what I asked. I asked if you a have a meter that can read mV ... milli volts
if not try another thermocouple
Ok, try another thermo
and/or try moving it up more into the flame but no more than 1/3 of the tip
There's no sequence or device that should prevent the pilot from staying lit. Replacing the gas control valve and the thermocouple should allow you to light the pilot and have it stay lit. You've given me no indication as to why it shouldn't stay lit other than possibly the position of the thermocouple in the pilot flame. The system's electrical circuits play no role in lighting the pilot and keeping it lit. I'm assuming you have a simple thermocouple (no terminal block in it or connected to it at the gas valve). I don't recall ever seeing a pilot terminal block in a 2 series boiler and I've been installing and servicing them since this model was first introduced 3 decades ago.