I agree that there is where the focus was and, given how many characters entered the story at one point or another, it was narratively economical to limit the effects to the core 30 or so, with in-laws as appropriate.
And one other thing: those who appeared on the freighter, except Miles, were evil through and through. They would not have qualified to enter the church at the end.
One last weird thought: why not Jacob in the church at the end?
I would have been surprised/disappointed to see Jacob in the church scene.