The front brake rotors can warp and cause a vibration when braking. The rotors will need to be machined or in cases where they are worn to thin, replaced to correct this issue.
Problems for specific Honda Civic Si years:
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Most reported 1999 Honda Civic Si problems
Plugged moon roof drains can cause a water leak inside the car, usually over the head of the driver or passengers head when turning a corner. Cleaning the drains will fix this problem.
Damaged engine mounts can lead to vibration and roughness felt in the steering wheel. A rattle in the dash and engine area may also be heard. Replacement of damaged mounts will commonly correct these issues.
On some models the hood release cable breaks at the hood release handle.
On certain models the upper windshield molding vibrates at a higher speed causing a noise. Back filling the molding with silicone sealer will eliminate the noise.
The idler pulley for the AC compressor belt can fail causing a growling type noise. The idler pulley will have to be replaced to stop the noise.
A faulty brake master cylinder reservoir filter can cause the brake system indicator to illuminate after a cold start and then go off. Replacement of the reservoir filter will commonly fix this problem.
Some Honda Civics have seat belt issues that may be covered under Honda's Lifetime Seat Belt Limited Warranty. Please contact your local Honda dealer to see if your seat belt problem is covered.
The shift control solenoid externally mounted on the automatic transmission can fail and causes a harsh 1-2 shift. Replacing the shift solenoid and flushing the transmission with genuine Honda automatic transmission fluid may eliminate harsh shifting characteristics. A broken internal spring can cause the same issue. If the shift control solenoid does not repair the problem, the transmission will have to be replaced.
A refrigerant leak may develop from the AC evaporator causing the AC to blow warm air. Verifying failure of this component is difficult. A good shop will use leak detection dye to verify a failing evaporator.