Thanks guys, I really appreciate the replies.
I've spooled up a couple of different reels since I posted this and experimented a bit with the technique. To clarify, diemai, the twist problem was happening while I was reeling the new line on the spool. The line would get really twisted and wrap around the tip of my rod several times while trying to fill up the spool. Diemai, I like you idea about not spinning the filler spool and just winding it off the top but some of the spools I use have a little notch cut into them that catches on the line while it's coming off. When I wound some on last night I had line coming off in the same direction that it was going on the reel. The line went through all the rod guides and it worked just fine. But then again, I have tried this before and had bad results so I think it might have something to do with how the manufacturer winds the line.
I also like the idea of just passing the line through the bottom guide, I'll have to try that.