Hi VOK. Well, the simple and correct answer is that there is no one single "best" way. A periodized routine works ok (see the site for a good detailed description). Another approach is Byrce and others style of a type of training where you shoot for a number of lifts in a given time period, say 10-20 minutes. See
and look around for the 50/20 thing. Also see
They do just about everything, and mix up limit strength, strength endurance, cardiovascular, and just about anything else. All these methods will focus on strength enduranc, in different ways. Which is "best"? Well, I suggest you look all of them over and make a decision based on your needs. The ironworks guys (Bryces site) deals more with heavier weights, but the crossfitters go with more moderate weights and focus more on times.
Good luck and good reading.