I came across this post, which reports the following interview question:
Given two arrays of numbers, find if each of the two arrays have the same s
In the algebraic decision tree model, there are known Omega(NlogN) lower bounds for computing set intersection (irrespective of the space limits).
For instance, see here: http://compgeom.cs.uiuc.edu/~jeffe/teaching/497/06-algebraic-tree.pdf
So unless you do clever bit manipulations/hashing type approaches, you cannot do better than NlogN.
For instance, if you used only comparisons, you cannot do better than NlogN.