To use a pet door, have the enclosure connected to your house, sort of like an outdoor aviary. Remember to pour a footing and have the fence buried a few inches into the concrete so raccoons can't dig under it. The stray dog that ended up in my wife's arms seems very leery and timid whenever I get close. If the dog approaches me, it seems fine. But this is not your fault.
All dogs are serious about the dominance hierarchy.
When Dog rolls over and urinates she's reminding you that you are the leader of her pack. She is submissive by nature and she will stay that way. Don't stand when you call her. Don't look her directly in the eye but look to the side. Speak softly and carry a small stick.