I think continuity editing is also something people tend to leave till the end of development, rather than have to keep going over the same stuff each time changes are made, etc. Since development invariably runs late, it may not get done properly.
There are a couple places in the game that you can not get back to (by normal means) once you leave (Corinna's basement, the bee/wasp garden...). Malcolm's house in Verdistis gets reset on completing that quest, with no check as to whether the player has stored anything in the chest there (as a couple people did). Hopefully Larian is taking continuity seriously with DD2.