The auto draft system works by filling all your slots for your team prior to picking bench players. But if you rank 50 running backs first and at least three are available through the first three rounds, you'd get the best available running back with the first three draft picks the auto-draft makes (2 RB and would fill the W/R slot).
Auto-draft then goes on to fill the other slots according to whatever ranking you have. If the next highest ranked player available when autodraft selects is a TE, then you'll get a TE. If it is a QB, then a QB and so on.
Once any particular slot is full though, it goes on to combine the "need" with the ranking, so if a QB you wanted was ranked highly (say Philip Rivers) but was already selected and the next highest player you had ranked was Lamont Jordan and you still had an RB position empty, it would take Jordan rather than another QB. It's searching to fill your needs but match your rankings too.
But the likely draft routine would go RB/WR/QB/WR/RB and WR or RB to fill the first six slots, assuming someone's rankings are fairly normal and the players are available. What gets picked where depends on who is available and ranked higher at any position.
It's not all bad sometimes to be honest. The draft is a crapshoot no matter what, especially once you're into the season and injuries factor in. And Dressel's comments about the timing of the playoffs from last year become relevant too. I autodrafted only once, the first year I played, over in the spawn board. I got first pick, had LT, but also ended up with Rudi Johnson, Chad Johnson and a bunch of other studs. I finished first and lost the first round of the playoffs, won the consolation by huge margins.
I wouldn't want to do it, but the results aren't horrible necessarily. Sometimes they work out pretty good. But yeah, Theo will draft a kicker probably before the rest of us. Probably a D before most and probably a TE earlier as well. Otherwise it won't change too much.