You could get an x pen and move her into that, which gives her space but it’s still her territory. I would put a tunnel or cardboard box with back and front doors ( small enough to provide a hidey place for her ).

My first bunny actually came from outdoors, because a neighbor was irresponsible and let him get loose. He decided this was his home and flopped behind my TV. He was socialized because this neighbor had 5 kids. However I still spent many hours lying on the floor talking to him until he began trusting me.

I used to scoop him up all the time, but since Josephine came they keep each other company but now have grown unaccustomed to being picked up. I try to remember to do so once a day.

I don’t think either of them will be lap bunnies or lay beside me, but they will hop on me when I’m on the floor and purr when they get pets. Not all bunnies are as friendly. I can only suggest getting down to your bunny’s level and spending time with her.

EDIT

 Healthy treats are also a way to associate you with positive feelings. 

Bunnies can take a long time to warm up to people. Especially since she’s been an outdoors-bun. I think time and patience and association between you and good things like yummy treats and head-rubs will work wonders. But it may still take months. My bunny Bam who I found as a stray (someone had dumped him on a pile of garbage in the woods) needed a whole year before he trusted me and became a cuddly, social, easy-going bunny. He was an adult when I found him, I’d expect a young rabbit to take less time to acclimatize herself to new surroundings and people.

Virtually all adult bunnies hate being picked up. It’s very stressful for a rabbit to be picked up, because being picked up is what happens just before you become dinner to a fox or bird of prey. But I still think you shouldn’t just let her sit in her cage all day long. They need exercise and a certain amount of freedom to be happy and healthy. Maybe you could set up an x-pen as an extension of her cage? She might even go in there voluntarily at night. My Bam does that at my mother’s when we visit, he has a cage there that’s always open and he goes there to eat and drink and sleep. I never have to catch him, he just hops off to his safe cage when it’s bedtime. It absolutely helps that he gets his food served in there. Bunnies like food.

Oh is that why they don’t like being picked up ?!?! I thought they are afraid of heights.

I only do so briefly now so they are a bit more used to it, in case it is necessary someday.