Tottenham boss Andre Villas-Boas was criticised for allowing France international Hugo Lloris to continue after he received a blow to the head following a collision with Everton forward Romelu Lukaku in Sunday's Barclays Premier League game at Goodison Park on Sunday.
Wenger feels in such circumstances, managers should be able to replace the goalkeeper, even if all other substitutes have already been used.
"I am for a change of rule on that because imagine that England leads 1-0 in a World Cup final after 80 minutes, that you have made your three changes and exactly the same situation happens to your goalkeeper. Would you then decide to take the goalkeeper off and put the right-back in goal and play with 10 men? Or would you be in favour of leaving your goalkeeper on?" the Arsenal manager said.
"I believe in this exceptional circumstances and down to the fact that a goalkeeper is a special position - you would allow the goalkeeper to come off and replace him with the other goalkeeper, even if you have changed your three players.
"Down to medical reasons that has absolutely to be changed in our game."
Asked if in the same situation he would have taken Lloris off, Wenger said: "I listen to the medical staff on that front. Head injuries are special injuries where I take only advice from our doctor."