The press has a break-in period too. When I bought the parts to convert mine to 9mm I was having trouble with the powder measure not always returning to its downward position, and if I didn't catch this I would be hammering squibs out of my barrel (did that numerous times for the first several hundred reloads). Now it's running fine.
I find the auto disk tends to throw a little on the lite side of what the documentation says, but it doesn't really bother me. Also, since clamping the press down to a rolling bench I have that will wiggle and shimmy with every stroke I have gotten a much better experience with primer feeding from the tray, and it probably doesn't hurt the powder flow either.
The only issue that I have, and its with 9mm only, is sometimes the primer doesn't clear the case (despite the decapping rod having a ridiculous amount of protrusion, and I will end up with a finished round with a dud primer - I'll get 1 or 2 of those per hundred if I don't watch for the sign (that being the column of primers either not moving or getting kicked back up by one when the partially primed case moves to the charging station). It's less hassle to put the ram half way up and manually index the cases out and start a fresh cycle than it is to pull bullets.
Over all, once you know how to run the thing, the Lee is perfectly serviceable. It's quirks would be unacceptable at a higher price point, but for under $300 for a progressive that does everything out of the box save feed the bullets, the compromise in it not having turn-key, eyes-closed function really isn't all that horrible.