Bizzy:
I skimmed the responses and didn't see anyone ask about your tranny mount. It's on the driver's side near your feet as well. You might want to look into that.
To check the front and rear motor mounts do the following.
With the hood up so you can see the motor, put your foot on the brake pedal and ensure that the car doesn't move forward or backward when doing this.
Put the car in first and give the car slight gas while holding the brake down and watch the motor. Does it move? Do the same thing in reverse. If it moves up on either the front or rear of the car when doing the above then you have yourself some bad mounts.
Sway bar links will cause a clunking sound also as will improperly installed struts and springs and bad strut mounts.
Scott Patterson also outlined how to remedy a clunking sound caused by the spring. Though I don't have time at the moment to search it out for you.
Just a few things to check.
Edit: Also, was the subframe plate nut recall done on your car?