OK, let me see if I can be of any help at all. So Kiki is thinking:
“I’m somehow relieved.”
I’m not sure what ように is doing here, but I read this as something like “before it was like they were blackly (?) displeased (とがった) to see me fly”
“indeed, they looked at me like a bad witch”
Kiki thought (deeply).
“That they would grow fond of me when I’m bad at it (flying), is an odd thing.”
“It’s like (what) my mother had known (become aware of).”
All a bit rough, and I’m probably missing a few things myself. But maybe something in there will be useful.