One thing you should keep in mind is your maintenance equipment. If the metal on your brush, net, or anything else you use is damaged then it could cause damage to your liner. Be sure to inspect them regularly for metal shards or rough parts.
Also, when you brush your pool make sure that you don't drag or push the brush against the walls of your pool when you are brushing the bottom. Be sure to always leave your brush or net on your pool pole so that the pole itself doesn't damage the liner by mistake.