I would say that is bred from making small adjustments over time. Eventually you will figure out which lifts work for you and which don't, how much volume you need, etc. Its not something that one really can build from scratch.
For example, I follow a Westside-type split. I use the traditional breakdown of max-effort and dynamic-effort days (general template), and have done so for the better part of the past year. Within that general outline I have rotated certain lifts in and out as considered necessary. A LOT of my decision making was helped along by 2 different experienced lifters who were nice enough to help coach me. For example, right now I am working really hard on developing my upper back to aid in my bench technique, so I'm doing a LOT of high cable rows. Did I always do this? No. But I am now. And I have found that its much easier to address problems as they arise than to try to pre-empt every possible issue you might have.
Basically, just have a good reason for whatever you decide to do. I built a great base of strength by following a 5x5 program but eventually my bench stalled out. Through experimentation I found it was because I was severely lacking in upper body mass. My bench started moving again when I added some tricep work. Make sense?