Check ball joints, lower arm bushings, sway bar links, and wheel bearings for damage (looseness or broken). Noise is usually result of a broken or badly worn component.

good luck

 

Something that is always over looked are the sway bar links. If you hear a clunk hitting holes then more than likely that is your issue. Also check and make sure you ball joints are in good shape.

 

I just traded in an Accord 06 Coupe, 6 speed manual w/Navi. I had the same issue. Replaced most everything in the front end trying to find the "Klunk". It turned out to be the axle shafts. Replaced them, and it was gone. End of that. The joint was loose, going over ridges in the road, slight bumps, it was klunk. Put car up on ramps, grab the axle the best you can in the middle, or use a breaker bar, and see the play. Apparently, this is pretty common problem. Suggestion: Spend the bucks, get the original Honda shafts, less problems.