I've been using the 'official' Xbox One Media remote for some time and it works perfectly with FLIRC. With just one caveat: FLIRC receives double-presses if the line of sight is too clear. Obscure your FLIRC behind the TV and everything is fine.
However, I've found that the knock-off xbox remotes (see the planet-sized image below) work even better. With no double-commands or other irritants. And they are 1/3 to 1/4 of the price.
Hope this helps.