I would love to see a sequel or spiritual successor to AP. (probably prefer a successor).
Different publisher... ideally if it was all in-house, but I realise this may be unfeasible due to money etc...
Perhaps a little bit less action-oriented. By that I mean, more undercover work, manipulation, not always just stealthy or combat.
Anyone remember a game called Spycraft many many years ago? That was a pretty interesting game - it had a mix of analysing evidence, satelite pictures, (not enough action though).
Perhaps an open-ish world would be good like VTMB (sorta), or Daggerfall.