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Between neutral and first, and then between first and second, i used to hear all the time this noise similar to if you put some rocks in a bucket of water and shook it around, just very slight when i was pressing the gas and letting the clutch out. What the hell is that, i mean the car is only a year old?

 
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im so lost on your description of the sound, but i do know that when you hear a audible "boom" on the shift, you crushed the bearings of that gear.

 
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welcome to the "my brand new honda clutch is fuc1<ed up already club" i think we all have either what you have described, or something close to it. you could take it into the dealer, but they will pretend like they don't hear anything or they will tell you its normal.

 
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Well its definatly not a "BOOM".......... And i guess if the clutch is getting worn out i'll have to get another one when i get a turbo anyways.