U8 looks like a "one shot", it gives a pulse of a specific width when triggered. I can't find part numbers in the manual, can you read them off the chip? You say the red ones are "flat", but you don't post levels, this would help.
Yes, that flip flop in the pink box upper left certainly looks suspect. Need a part number for that so we can see if CLR should be /CLR, and need to know what the level on that is.
You SURE you got +5V on this thing? I notice your active signal chains seem to be the ones driven offboard from analog sections on the +12V line - sometimes this will give you "phantom" activity in logic getting powered through their inputs. On these kinds of chips part of the signal can go through the body-drain diodes and give enough power to get some misleading activity on a chain of gates, like in that Schmitt-trigger section.


