There's a learning curve to running a Pro-1000 press, but the most important things to remember are:
1. Keep it clean, especially under the shellplate in the carrier, and around the priming pin and chute. Some dry graphite down the primer chute will help a new chute slide better, do not get any lube or spray or grease in the primer chute, it is gravity powered.
2. Make sure it is timed correctly to avoid sideways and mashed primers. Get to know the feel of the press, how it indexes, how the mechanisms move- that way you get in synch with it and you will be running it more smoothly.
3. Keep the primer tray filled to the level of the top of the chute at a minimum. As soon as you can remove the tray without spilling primers, refill it.
4. A little silicone spray lube on the hex rod will work wonders for smoothness.
5. Get the case collator funnel. Seriously, it's $6 well spent.
6. Get used to applying a bit more force to the ram's downstroke to seat the primers fully.
7. If something does not feel right- something is stuck, something makes a funny sound, something looks wrong, the handle suddenly gets hard to move- STOP. Lower the ram (if you can) and try to find out what is causing the problem. FORCING the press to finish a cycle will just break something. Remove all the cases in the press at every stage of the process and set them aside. Fix the problem, then start the press going again. When you are done, go back and fix the ones you took out. That way you know you don't accidentally make a squib or double charge.
Most of these things are common to ALL progressive presses. I make lots and lots of ammo on my Pro-1000 and once I figured out how to "be one with the Pro1K" it got a lot easier and faster. Don't get caught up in the "I load 600 rounds per hour on my press" hype especially in the beginning....Try for smooth first, and the speed will come eventually.