As a referee, at this level I just ask of offside and out of play, as well as foot faults. Apart from this which I can also overrule on anything that an assistant referee gives, even if they are qualified ones, I make the decision.
As it was a clubs assistant I would not have over ruled my decision at all, and given it on the basis of what I believed was correct.
If I had qualified assistants I would give then a quarter of the field where they can 'assist' and as thy are not connected to any of the clubs, I would take there advise and have a chat with them where required to make a decision. If it was on my blind side I would take their decision.