1. My mother never buys cake mixes or ready-made cookies at the supermarket. She always buys the flour, sugar, butter, and eggs, and makes cakes and cookies from scratch.
2. George didn’t use a kit from a store to build a playhouse for his children. Instead, he designed the playhouse himself, bought all the materials he needed, and made it from scratch.

Compare to: start from scratch. The expression make something from scratch is usually used to describe baked goods (opt.1). Something made from scratch is considered to be superior to something pre-made, because it is probably made more carefully and with the best ingredients.