I wasn't discussing scheme per se. I'll agree that 03 team played harder (hell with Parcells as HC instead of Wade, that's a given) But the 07 and 09 teams were both better at creating pressure, and turnovers. They were also much more talented.
09 in particular is better in every single category. Your criticism just isn't valid. Yes they beat up some bad teams, but they also shut out a 5th ranked Eagles offense (as well as holding it to 14 and 16 points in other games), and kept Brees and Rodgers under 20 pts. (Oh, and they absolutely stopped the 4th quarter surge in New Orleans.)
03 played many more bad teams: the shitty Redskins, and shitty Giants twice, a Vickless falcons team, a Penningtonless Jets, an abysmal Bills offense, an abysmal Lions offense, the Bucs team they held to 16 was in a major slump, and hell even the Dolphins weren't in the top of the League in scoring, though I'm sure the Thanksgiving game helped elevate their position. While holding Brady to 12 is still pretty impressive (it was a 12th ranked offense that year), he wasn't the high scoring MVP Brady we know today, the Dolphins, Bills, and Browns held him to 12 or less as well that year. It's not nearly as impressive as the highs achieved by that 09 unit.
Bottom line, 09 defense allowed less points, playing much stronger competition. (Also I concede the 03 offense was pretty bad. Although I recall the scheme being very conservative, and focusing on time of possession, to keep the defense rested, which isn't something Garret has ever been great at.)