1. You seem to be all over the board. First you ask me in a post - how is it that a Spirit can be the Father of flesh? Then when I pose the question whether the Messiah is the Son of God or not, suddenly you are agreeing he is. Please commit to one position or the other.
What I am saying is that the Father is the Father of Jesus because Jesus had a spirit and that spirit came from heaven to dwell as a man in a physical body. Jesus the man is the whole man, body and spirit and God prepared a body for Jesus and places Jesus spirit in that body.
If the Son was just the body (as you seem to be saying) and not the spirit in the body also then God would not be His Father. That would be like saying God is the Father of the rocks.
2. The Messiah didn't exist until he was born - Except in the mind and plan of God. The scripture says he was made of a woman, made under the law - Galatians 4:4 (How could you exist before you were made?)
A good example of this is found in Revelation 13:8 where it mentions the lamb slain from the foundation of the world. Yet you know this could only be in the mind and plan of God. Because he wasn't actually slain until around 26-36 AD during the time of Pilate.
Jesus is from heaven, from the Father and returned there.
John 16:28
I came forth from the Father and have come into the world; I am leaving the world again and going to the Father.”
He was the Son of God from eternity. It is the Son through whom all things were made.
Heb 1:2 but in these last days he has spoken to us by his Son, whom he appointed the heir of all things, through whom also he created the world.
It is the prehuman Jesus who had a mind to take the form of a servant and become a man.
Phil 2:5 Have this mind among yourselves, which is yours in Christ Jesus, 6 who, though he was in the form of God, did not count equality with God a thing to be grasped, 7 but emptied himself, by taking the form of a servant, being born in the likeness of men.
It is the man Jesus who did not exist as a man before His conception. The eternal Son existed before He became a man but the human Son did not exist.
3. Of course the Son is distinct from his Father. The Father is the eternal Spirit and the Son was a human fleshly body. The question is who was it in that body? The answer is found in several verses including John 14:10 and Colossians 2:9-10
John 14:10 Don’t you believe that I am in the Father, and that the Father is in me? The words I say to you I do not speak on my own authority. Rather, it is the Father, living in me, who is doing his work.
In the spirit of Jesus is the Father who is in Jesus as Jesus is in the Father. God cannot be split up. Father and Son are together in the one Spirit.
Col 2:9 For in him the whole fullness of deity dwells bodily, 10 and you have been filled in him, who is the head of all rule and authority.
The fullness of deity dwells in Jesus because in Him is the Father and Holy Spirit. Jesus is the ruler of creation and has all power and authority in heaven and on earth. (Matt 28:16 Rev 3:14)
Now I will ask you: Why did he say when asked to show them the Father - if you have seen me you have seen the Father? John 14:8-9 (Surely you won't say they just look alike, when the Father is an invisible Spirit.)
Jesus said "if you have seen me you have seen the Father because Jesus is the image of the invisible God and is the imprint of God's nature and has the glory of the Father. (Col 1:15 Heb 1:3)
That does not mean He is the Father however imo.
They do not look alive because the Father is not a man but they are identical in other ways.
The Father and the Son both come and make their dwelling with and in someone who loves Jesus and obeys His teaching and this happens when we receive the Holy Spirit (in whom is the Father and Son) John 14:23
Also note that Isaiah 40:3 mentions a voice crying in the wilderness, Prepare ye the way of YHWH, make straight in the desert a highway for our God. When you get to the New Testament who does that voice turn out to be? (Answer - John the Baptist Matthew 3:3 )
So now I ask you: Who did John prepare the way for and Who showed up? (Answer - the Messiah who was YHWH manifest in the flesh)
I used Isa 40:3 earlier today to show that Jesus is Yahweh.
I also use other NT quotes from the OT which are about Yahweh in the OT and about Jesus in the NT to show that Jesus is Yahweh.
To me, as a Trinitarian it does not mean that the Father is His Son.
Yahweh was alone spreading out the heavens but the Son did it. (Heb 1:10 Psalm 102:25 Isa 44:24)
To me that means that the Son and Father are the one God. The Father is in the Son and the Son in the Father and the Spirit of God is the Spirit of Christ, the one Spirit (Romans 8:9 Eph 4:4)
Yahweh is one (Deut 6:4) in a compound way.
I and the Father are one means one "thing" ("one" is in the neuter and so it means one thing)
Of course they agree, that goes without saying, but that is not what Jesus meant and the Jews knew it and so wanted to stone Him. (John 10:30)