I understand your points of view, but I see it the opposite way. A lot of the problem with the run game has to do with Franks. Miami often played riskier in coverage (and on one occasion got burned) to stop the run. It was the smart plan and almost worked.
Miami highlighted our weakest point. Hopefully they end up much better than expected, and this will be one of Franks' worst games of the year. But in my view, the play calling was a crutch to Franks (b/c despite what they say publicly, the coaches clearly don't trust Franks with the reigns to this offense). So many short dinks and outs called for him to make easy throws (some of which he still screwed up). Franks looked more like a Freshman QB learning the system than Williams.
Of course, Franks being Franks, he mixes in a connection on a long bomb, and gets credit for a 66 yd Toney TD run to pad his passing stats (actually, those 2 plays were over half his stats on the day). And therein lies the problem. Wild inconsistency. Because when you're the focal point of the offense and more than half your stats come from 2 plays, what you're doing the rest of the game usually isn't good enough. No offensive rhythm, no sustained possession, and leaving your defense out there an extra 13 minutes (granted, a slight bit of that was their own fault).
And yeah, the converse is true, too. If he didn't throw two UFO's maybe he'd have 400 yards and 4 TDs, and we wouldn't be having this discussion. But he did, and the fact that it's par for the course during his career is the problem.
As for Franks' running ability. Diving for the line to gain is the minimum acceptable performance standard. Knowing where the line actually is before/during your run, reading the lanes and actually running when it's open, and/or actually standing up and taking a hit in attempt to fall forward and get that extra yard or two could move him up above minimum. But he rarely if ever does any of that as a runner.
Tackling improves, once you get to be a Senior game-IQ usually doesn't. My primary concern is Franks.