What I have read in the past and what I experienced:
* Windshield water nozzle squirting water during bump. Minor problem. Re-route the water tube on the small compartment above the firewall. Around the top mounting of strut.
* Engine Mounting. Sounds like gravel inside empty mineral water when you pass the bump. Random. Change the hydraulic engine mounting
* Squeak - Squeal every time clutch depress. Just dry mechanism near trans on the engine bay. Also the mechanism of the pedal inside the cabin.

I know for the fact one of friend of mine had his engine broken and covered by warranty. But only one. My other friends who have civic have no problem with engine at all.