The FA's reasoning is that there are only so many games before the EC qualifying games start, so Advocaat needs to have the team together as much as possible to implement his "system". So in that sense, there are no pointless games.
To be fair, if wasn't an Everton supporter, I would have whole heartedly supported the FA decision. In the players' mind there's fuck all to play for in Estonia and nobody would want to go there anyway, but if your country asks you to play an international game you should do it.