The general method to repair a crack is as follows:
--stabilize the underlying laminate layers if movement of that layer was the cause of the cracks;
--repair according to instructions from Boston Whaler: see
http://continuouswave.com/whaler/reference/repairInstructions.html--for cracks, the crack is often intentionally made wider by gouging it with a V-shaped tool; this give the new gel coat resin a better area to adhere to.
Use a gel coat resin with proper color match; when matching colors, first very lightly sand, clean, and polish an area of the existing gel coat so you get the proper color and lustre to use for color matching the new gel coat resin.
If there are a lot of cracks in one area, you may just want to re-finish that whole area.