I don't see any mention of the Holy Spirit or that He trumps a Prophet of God in either of those verses you quoted. It speaks of the verity that God spoke personally to prophets before Christ and in the days of the Apostles, the Lord was with them. The Holy Spirit does not "trump" the Prophet of the Lord, but affirms him.
John 16:12-15 (New International Version)
New International Version (NIV)
Copyright © 1973, 1978, 1984 by International Bible Society
12”I have much more to say to you, more than you can now bear. 13But when he, the Spirit of truth, comes, he will guide you into all truth. He will not speak on his own; he will speak only what he hears, and he will tell you what is yet to come. 14He will bring glory to me by taking from what is mine and making it known to you. 15All that belongs to the Father is mine. That is why I said the Spirit will take from what is mine and make it known to you.