She's only nine weeks, not long away from her mum and siblings. Get her used to being left, by gradually increasing the length of time you are away. The conventional advice is not to make a big fuss of her when you come back, lest she starts to see your return as a major event and attaches worrying significance to your leaving next time.If you're not going out, she can still probably hear you and will persist, but you have to steel yourself to her plaintive cries, otherwise you'll have a grown bitch who yelps and barks when you're not with her.
When out of the room or house, make sure she has suitable toys to distract her or comfort her.
Feeding? Giving the last meal in the early evening shouldn't cause problems. The pup will always wake at a time that doesn't suit you!