Ctrl + arrow keys working in tmux

This is similar to How to enable Control key combinations for GNU screen on putty?, but addresses a different aspect.

In a quick check, it seems that the problem is a conflict between this line

set-window-option -g xterm-keys on

and this:

set -g terminal-overrides "screen*:kLFT5=\eOD:kRIT5=\eOC:kUP5=\eOA:kDN5=\eOB:smkx@:rmkx@"

Dropping the set-window-option makes your configuration work for me.