If I do this and a lot of it is going to steal my wort, I toss it all in the primary. If it settled out in the brew kettle, it will settle in the primary. Unless you are sucking up the trub / yeast cake when bottling or racking you won't have to worry about that gunk getting in your bottles.
Perhaps don;t give it that final stir, even though you let it settle, as an hour settling rather than kicking it back up and letting it settle for a half hour is better to let it all fall out. Depending on the brew you sometimes have very little gunk and thus little loss, and sometimes not.
You can be fine with a partial boil, but I think it is best to dump more crud into the primary as losing a quart of partial boil wort is a bigger hit than a similar loss of full boil.