I've done the swap and understand the changes.
The easiest thing to do is pick up a set of 01 lines. Swap them in with the trans. The fitting with the checkball in the 01 is a different size hole than the 98's so you can't simply interchange. The 98 has threaded style line connections at the trans and the 01 will have the click in style. Easiest way is get click in lines and you are all set.
Another thing to consider and i'm unsure when W bodies changed over, but the PNP/gear selector switch would be on top of the transmission in 98. Might not be in 01, I'm unsure. If it's missing, it's easy to swap on from your old transmission. Line up the dot on it and you'd be all set.
The dot alignment can be found in this post. Skip 90% of this and only concentrate on the install of the switch parts.
http://www.grandprixforums.net/how-a...ion-49297.html