Erik Nevland was sent off and that didn’t help the visitors who had looked good value for a win after taking the lead through a first half spot kick from Diomansy Kamara
Paul Konchesky also saw red late on in the game.
"You cannot be happy in the face of injustice," Hodgson said.
"To play in the second half down to ten men is a bitter pill to swallow. But what can you do but accept the referee's decision because it doesn't change anything."
Fulham more than matched their Italian opponents for over an hour, and Hodgson added: “It was a fantastic performance from my players in the first half. We have been better than Roma when playing 11 against 11 in both games."