I've never heard of someone complaining of short ball times on LOTR!
As for the flippers, if you are hitting the ring fine at the beginning, but then it slowly starts to get weaker, that is the common problem with this machines's gameplay. I've tried the heatsinks, which seemed to make a small difference, but from everything I read, the under mounted computer fans are the only way to constantly cool down these coils. With the heatsinks from towergames, I have no problems hitting the ring ever, but there still is a noticeable reduction in force to the ring from a cold game to 30+ minutes in.
If the ring is hard to hit right away, especially with the upgraded coils, and the machines is routed, do a full rebuild. Set the flipper power settings back to default. Those settings are weird, my friend tinkered with them, and it just seems like you can never get them to do what you want.