I'm confused

[refnrev]

Had two situations last night that I think were wrong, but want to double check.
1. Game 1 of 1st match. I'm R and whistle for teams to take the court. U has his wheel and checks the two teams lineups. He is still holding the ball. He checks receving team then serving team. He walks over to coaches and says something. They both shake their heads. He walks over and tells me we have an illegal alignment on S team and it is signaled and point awarded to R team and ball given to opponents for serve. How can you have illegal alignment when you're checking the teams before the start of the game. I thought the whole point was to make sure you have the right players on the court. Doesn't IA have to occur at the moment of serve?

2. During game 2 of second match. I'm U. Nice long volley between two teams. Ball drops on home side of the court. No whistle. Coaches look at me and I look at R. He calls me over and asks, "Did you have an 'in the net' on home?" I just look at him and shake my head no. There was no one close to the net and I certainly didn't blow a whistle. He calls for a replay. Shouldn't it have been a point for home? How could you have a replay when the play ended with no violation or foul?

I know I'm a little rusty because of the break between HS and MS and have done a lot of basketball in between, but am I just full of prunes on these or were both of these calls wrong?