Clutch does not engage after Clutch/Flywheel swap

[zboot]

So,

I'd removed the tranny from the engine and swapped over an m3 clutch and flywheel. To be honest, I don't remember looking at the state of the throw-out fork. Anyway, it's been bolted back to the engine and placed in the car.

So, I connected up the shift linkage and clutch slave cylinder, depress the clutch and no resistance at all, just drops down. Regardless of whether I depress the clutch pedal or not, I'm able to shift into any gear.

I filled and semi bled the brake fluid reservoir. Now my clutch (and brake) pedal provides plenty of resistance, though the clutch remains disengaged regardless of the state of the clutch pedal (ie, I can shift gears). Same situation when the clutch slave cylinder is disconnected from the transmission.

Is there something I'm missing or am I going to have to pull the engine and tranny out again?