extremely slight modifications in the structure or habits of one inhabitant would often give it an advantage over others
Here Darwin seems to be talking about beneficial mutations that randomly occur. If these "slight modifications" allow an individual to become successful and pass on their genetic material, then this small difference will also be passed down. It is amazing to ponder how even the most minuscule of mutations can make a large difference in the survival of a single individual, or even species! If a single trait is so beneficial and passed down through generations then the trail will become very numerous.