Thanks a lot for very informative answers. From now on i will be taking her out of her box every time when she wakes up in the night and get her to do her things. Unfortunately our garden is not a proper garden and open for every single cat and dog in the area so i won't risk taking her outside yet. I will keep using pads instead, only i will be taking her to wee/poo in the toilet as there are no carpets

And we will consider getting crate for her as well. Probably will get one today