A 99 trans will fit, but you do realize that your swapping from a rod shift trans to a cable shift so the linkage, tower, etc all needs to be swapped as well.
Jim Hahn
1996 T-Red Contour SE Reborn 4/6/04
3.0L swap and Arizona Dyno Chip Turbo Kit
364 whp, 410 wtq @ 4,700 rpm
