Here is a decent article from the Hardball Times about lineup construction:
Constructing Lineups
The examples are a few years old, but certainly still relevant. Hope it isn't too nerdy for you.
The generic answer is that the players that bat first and second should be the players that get on base the best (high OBP). It is nice if they are fast, but that is a secondary goal. The number 3 and 4 hitters should be the best hitters. The 5 and 6 hitters should have decent contact and ability to hit extra-base hits (good gap and power ratings). Then fill in the rest from there.
With regards to the strategy sliders - have you noticed that they are score and inning specific? At the top left, it will tell you the game situation you are setting the slider for (for example, innings 1-3 with a tie score). You need to adjust them for all situations for them to apply all the time. Obviously an advanced use of these would be to set them up different in every situation (more aggressive stealing and baserunning when down by 1 run in the 8th inning, less aggressive when up my 4+ runs in the 6th inning).
Anyway, enjoy the best baseball sim ever. We hope to stick with it - once you get past the initial overwhelming stage, it is great.