We have an 18 week old. He has been sleeping through the night most nights since he was 12 weeks old. We do sometimes battle in the morning where we want to get up at 6:30, and he thinks its fun to play at 5:30 - 6:00 but will usually settle down.
1 - What is the last time you feed / give water? Our last feeding is about 6:00. His water dish is still there, but if I hear him lapping up a bunch after a walk I will limit it. If we feed him around 8:00 he will get up in the middle of the night.
2 - We put the crate in our room and then I could quiet him by lying on the floor for a few minutes (he doesn't need this anymore). I think they prefer your room if that is possible and that might help calm her.
3 - We have been leaving him in he crate until 6:30 even if he cries and barks a bit. We live in a house so its not an issue. It only happens a few times a week now, especially if my husband is already up. I would also love to hear what others have done for more quiet time in the morning.