The first round was a mistake and should have been called. Marquez/Barrera is another obvious one. In that instance you MUST have instant replay. It is too important and ignorant not to have instant replay to call out these things between rounds. The ref can just get on with it, but inbetween rounds be informed and thus the fighters too. There is no reason not to do so.
In terms of the hurtful round two, I don't think it is any of the refs business. If a man wants to stay on his feet then that is his right. Surely that is a judging decision and then I disagree. A round is a round and either you win it or you don't. To score a round 10-8 without a KD, it must be something truly exceptional. Boxing ISN'T about how many times you stun a man, but other factors too. I like an effective jab and high output. Give me 2 minutes of controlled jab and combinations without power over 30 seconds with two big right leads. The other man dominated you for most of the round and outlanded you massively. You simply don't deserve the round on hurting a man twice and being thoroughly outboxed the rest of the time.
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