Hmm... have you tried adjusting the striker that the latch attaches to when you close the trunk lid? It's held in place with two 10mm bolts, and is adjustable.
Here, this is a TSB from the FAQ's
about the trunk lid being difficult to close. http://www.mediafire.com/?3xtxcjzz1co
The trunk lid may be difficult to close or won’t latch
The trunk lid may be misaligned, and the trunk lid
opener cable, trunk lid latch, lock cylinder, lock rod,
and/or the trunk lid latch striker may need adjustment