"No, I don't think the FA have done the right thing," Fowler told the BBC's Football Focus programme.
"I know the fines are different [between Suarez and Terry] but that just tells me that John Terry probably earns more than Luis Suarez. I can't believe he did not get the same number of games [as Suarez].
"A four-match ban is just one more than a straight red for some offences. To me that doesn't sit right."
Terry has started Chelsea's Premier League game at Arsenal this afternoon, having delayed his decision on whether to appeal his punishment.