It's most likely that the intake just needs to be reset. The job should not require any fiberglass work to put the intake back in the same location.
Pour enough water into the bilge to cover the intake and look under the boat to see if water is leaking through. If water is leaking through, do not attempt to repair it with silicone. The intake would need to be reset with epoxy.
Just be advised that IT IS on its leg if it is not done already. Reply back with your findings.
Good luck,
Joe