So the car was fine and suddenly is not, or you guys just bought it swapped and messed up like this?
Also, you can get a flywheel/clutch wet without doing much harm. Same materials as your brakes. Now, I wouldn't suggest hosing it down on a daily basis, but getting it wet a few times won't harm it.
Its hard to make a good guess with the limited info we have. But, if you put it into gear and let the clutch out and the car doesn't move, thats going to be either big time clutch trouble (assembled wrong, clutch shattered, etc), internal transmission problem (unlikely, honda mt's are pretty well bullet proof) or a snapped axle. If one axle is broken, the car won't budge. Check that out first.. make sure the axles are firmly socketed into the transmission and are in good shape.
Give us more info, as much as you can!