The why and wherefores are best found in Harold McGee's On Food and Cooking. Also Cook's Illustrated books and magazines usually discuss the development of the recipe, what worked, what didn't and why, with science outtakes along the way. Many like Shirley Corriher's books Cookwise and Bakewise, but I didn't.
James Peterson offers a number of books that cover topics well. For me, much of their value is more between the lines and understanding the pictures. Again, for me, this would seem to be books better suited once you have some time and experience. Books to look at after 6-12 months of learning. His Essentials of Cooking is perhaps the exception. This is a book I'd recommend revisitng a number of times. Certainly early on, then every few months again and again. You'll have some epiphanies this way as technique and explanation coalesce with your own experience.
Pepin is a talent and well worth watching on TV, Video and Youtube. Much like Peterson however, you learn more from him once you have some experience so you know what to watch for for improving yourself.