ummmm so i just had a thought.
so in that scene where michael says to sara “you’re not calling him junior, are you?” the implication here is that he knew his son was going to be named after him, but how they would differentiate between them hadn’t been decided, other than sara promising they wouldn’t call him junior.
but in previous episodes we heard michael refer to his son as mike. when he asked linc if mike and sara were okay, and when he told whip that that mike scofield lived in ithaca new york and to tell him his father loved him very much, he referred to his son as mike. at the time i figured we knew he had kept tabs on sara and mike, so he knew that’s what she was calling him.
but think about it. michael had to ask her what she was calling him. so this means that michael, on his own, decided that the way he wanted to differentiate between himself and his son was by shortening his son’s name to mike. and then sara also made the same decision on her own. it wasn’t until he finally spoke to sara that he would have known they landed on the same solution. which is just… THESE TWO I SWEAR. completely connected with each other, no matter what.