After returning from Lisbon, Emery will take his side to Crystal Palace the following Sunday - but the Arsenal head coach believes it is the prerogative of the rights holders to determine when his team play.
"If we are remembering the last match at the Emirates we won but not playing like we want - with the control against the opposition." he added.
"I am not here to talk about individual cases but to talk more of the philosophy we are bringing", he said in an interview with BBC Sport.
"He is very important for us because he is our captain", the Arsenal boss told the club's website. The supporters can enjoy it with us but also we're speaking with our reality every day.
"But now he is getting better, he is training with us in some things and this is very positive". "Because of the process being so disciplined, I have strong feeling that we made the right decision and we are very pleased with him". Our target now is the same as in the first matches.
'He needs to feel [well] first, if he is doing some things, then he is doing well.
Arsenal's Welsh midfielder Aaron Ramsey is set to leave the club after failing to agree a contract extension, and with his current deal set to expire in July it is rumoured that the Gunners may cash in during the January transfer window. But after six matches winning in the Premier League, it hasn't changed. We need to improve because for example the match against Fulham was a very good result and a very good game for 90 minutes but in the first 45 minutes I thought we needed to do better. The future is tomorrow, no more. I want every player to stay OK, with the mentality to prepare, to play and [be] together to win.
"And you'd have to say them all - and that speaks volumes about the type of player he is".
After their opening eight matches, the Gunners find themselves sitting in fourth; two points behind leaders Manchester City who are only ahead of Chelsea and Liverpool on goal difference.